Ecosyste.ms: Repos

An open API service providing repository metadata for many open source software ecosystems.

GitHub topics: gene-expression

omics-datascience/BioAPI

A powerful abstraction of gene databases

Language: Python - Size: 13.1 MB - Last synced: 44 minutes ago - Pushed: about 2 hours ago - Stars: 5 - Forks: 0

gaolabtools/scNanoGPS

Single cell Nanopore sequencing data for Genotype and Phenotype

Language: Python - Size: 27 MB - Last synced: about 2 hours ago - Pushed: about 3 hours ago - Stars: 33 - Forks: 1

bruvellu/terebratalia-wnts

Expression of Wnt signaling components in the brachiopod Terebratalia transversa

Language: HTML - Size: 3.01 MB - Last synced: about 13 hours ago - Pushed: about 14 hours ago - Stars: 1 - Forks: 0

seandavi/awesome-single-cell

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

Size: 1.35 MB - Last synced: 3 days ago - Pushed: about 2 months ago - Stars: 2,930 - Forks: 922

MoseleyBioinformaticsLab/categoryCompare2

Enables Gene Ontology (and other feature annotation) enrichment calculations and comparisons between feature sets.

Language: R - Size: 32.1 MB - Last synced: 6 days ago - Pushed: 6 days ago - Stars: 1 - Forks: 1

PavlidisLab/rnaseq-pipeline

RNA-seq pipeline for raw sequence alignment and transcript/gene quantification.

Language: Python - Size: 43.5 MB - Last synced: 7 days ago - Pushed: 7 days ago - Stars: 19 - Forks: 4

markziemann/scsimde

simulating dysregulated gene expression in single cell transcriptome data

Language: R - Size: 16.6 KB - Last synced: 7 days ago - Pushed: almost 4 years ago - Stars: 0 - Forks: 0

DiseaseTranscriptomicsLab/voyAGEr

⏳ Online graphical interface to explore age-related gene expression alterations in 49 GTEx human tissues

Language: HTML - Size: 1.92 GB - Last synced: 9 days ago - Pushed: 9 days ago - Stars: 1 - Forks: 0

iSEE/iSEE

R/shiny interface for interactive visualization of data in SummarizedExperiment objects

Language: R - Size: 16.4 MB - Last synced: 7 days ago - Pushed: 14 days ago - Stars: 220 - Forks: 41

BgeeDB/bgee-unil

React code of the Bgee frontend

Language: JavaScript - Size: 48.8 MB - Last synced: about 15 hours ago - Pushed: about 16 hours ago - Stars: 1 - Forks: 4

BgeeDB/bgee_apps

Source code of the Java Bgee applications

Language: Java - Size: 178 MB - Last synced: about 15 hours ago - Pushed: 1 day ago - Stars: 2 - Forks: 1

federicomarini/GeneTonic

Enjoy your transcriptomic data and analysis responsibly - like sipping a cocktail

Language: R - Size: 115 MB - Last synced: 7 days ago - Pushed: 14 days ago - Stars: 75 - Forks: 8

dhimmel/lincs

Library of Integrated Cellular Signatures L1000

Language: Jupyter Notebook - Size: 255 MB - Last synced: 15 days ago - Pushed: about 2 years ago - Stars: 25 - Forks: 5

lucidrains/enformer-pytorch

Implementation of Enformer, Deepmind's attention network for predicting gene expression, in Pytorch

Language: Python - Size: 8.75 MB - Last synced: 15 days ago - Pushed: about 2 months ago - Stars: 390 - Forks: 70

maeslopezortiz/Gene-co-expression-network-analysis

Co-expression networks for gene correlation analysis.

Language: R - Size: 12.1 MB - Last synced: 18 days ago - Pushed: 18 days ago - Stars: 0 - Forks: 0

fbrundu/pymrmr

Python3 binding to mRMR Feature Selection algorithm (currently not maintained)

Language: C++ - Size: 212 KB - Last synced: 10 days ago - Pushed: 10 days ago - Stars: 138 - Forks: 37

tmichoel/BioFindr.jl

Fast Inference of Biological Networks from Directed Regulations (Findr) in Julia

Language: Julia - Size: 1.53 MB - Last synced: 20 days ago - Pushed: 20 days ago - Stars: 1 - Forks: 0

federicomarini/awesome-expression-browser

😎 A curated list of software and resources for exploring and visualizing (browsing) expression data 😎

Size: 300 KB - Last synced: 3 days ago - Pushed: 21 days ago - Stars: 124 - Forks: 37

saeyslab/nichenetr

NicheNet: predict active ligand-target links between interacting cells

Language: R - Size: 151 MB - Last synced: 13 days ago - Pushed: 13 days ago - Stars: 437 - Forks: 113

apblair/CellLayers

Uncovering structure in unsupervised single cell analysis.

Language: Jupyter Notebook - Size: 390 MB - Last synced: 12 days ago - Pushed: 22 days ago - Stars: 4 - Forks: 0

broadinstitute/Tangram

Spatial alignment of single cell transcriptomic data.

Language: Jupyter Notebook - Size: 141 MB - Last synced: 17 days ago - Pushed: 9 months ago - Stars: 220 - Forks: 45

swvanderlaan/QTLToolKit

A workflow based on QTLtools to run cis- and trans-QTL analyses.

Language: Shell - Size: 37.2 MB - Last synced: 24 days ago - Pushed: 24 days ago - Stars: 6 - Forks: 6

IGS/gEAR

The gEAR Portal was created as a data archive and viewer for gene expression data including microarrays, bulk RNA-Seq, single-cell RNA-Seq and more.

Language: Jupyter Notebook - Size: 205 MB - Last synced: 30 days ago - Pushed: about 1 month ago - Stars: 10 - Forks: 5

jware-solutions/ggca

Blazing fast Gene/GEM Correlation Analysis for Rust and Python

Language: Rust - Size: 11.4 MB - Last synced: 29 days ago - Pushed: 2 months ago - Stars: 4 - Forks: 2

lasseignelab/230227_EJ_MouseBrainIsoDiv

This repository is the current repository for our Jones et al. 2024 manuscript titled Long-read RNA sequencing identifies region- and sex-specific C57BL/6J mouse brain mRNA isoform expression and usage.

Language: R - Size: 53.7 MB - Last synced: 29 days ago - Pushed: 29 days ago - Stars: 0 - Forks: 0

sanjaynagi/AnoExpress

Anopheles gene expression in insecticide resistance studies

Language: Jupyter Notebook - Size: 82.1 MB - Last synced: 16 days ago - Pushed: 4 months ago - Stars: 2 - Forks: 0

biomystery/duration_decode_manuscript

Code and Data for Gene Regulatory Strategies paper.

Language: PostScript - Size: 216 MB - Last synced: about 1 month ago - Pushed: over 3 years ago - Stars: 0 - Forks: 1

nuno-agostinho/psichomics

Interactive R package to quantify, analyse and visualise alternative splicing

Language: R - Size: 56.1 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 33 - Forks: 12

nuno-agostinho/cTRAP

Identification of candidate causal perturbations from differential gene expression data

Language: R - Size: 483 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 5 - Forks: 1

COMBINE-lab/salmon

🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment

Language: C++ - Size: 209 MB - Last synced: about 1 month ago - Pushed: 2 months ago - Stars: 725 - Forks: 156

saezlab/dorothea

R package to access DoRothEA's regulons

Language: R - Size: 393 MB - Last synced: about 1 month ago - Pushed: 3 months ago - Stars: 119 - Forks: 25

greenelab/RNAseq_titration_results

Cross-platform normalization enables machine learning model training on microarray and RNA-seq data simultaneously

Language: HTML - Size: 3.35 MB - Last synced: 22 days ago - Pushed: about 1 year ago - Stars: 33 - Forks: 17

omics-datascience/modulector

An open platform which provides information about miRNAs and genes from different popular databases

Language: Python - Size: 52.5 MB - Last synced: 29 days ago - Pushed: 29 days ago - Stars: 6 - Forks: 0

dohlee/chromoformer

The official code implementation for Chromoformer in PyTorch. (Lee et al., Nature Communications. 2022)

Language: Python - Size: 137 MB - Last synced: about 7 hours ago - Pushed: 9 months ago - Stars: 29 - Forks: 0

RichardMatzko/BioNexusSentinel

A research biochemical network explorer and genetic cytohistological encyclopedia.

Language: Python - Size: 19.3 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 1 - Forks: 0

bhklab/survcomp

R package for performance assessment and comparison for survival analysis

Language: C++ - Size: 4.71 MB - Last synced: about 1 month ago - Pushed: about 2 years ago - Stars: 9 - Forks: 7

greenelab/BioBombe

BioBombe: Sequentially compressed gene expression features enhances biological signatures

Language: Jupyter Notebook - Size: 2.28 GB - Last synced: about 1 month ago - Pushed: about 3 years ago - Stars: 61 - Forks: 23

iSEE/iSEE_custom

Examples of custom panels for the iSEE package

Language: R - Size: 3.41 MB - Last synced: 7 days ago - Pushed: over 4 years ago - Stars: 6 - Forks: 1

DeplanckeLab/ASAP

ASAP : Automated Single-cell Analysis Pipeline

Language: Java - Size: 170 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 23 - Forks: 10

thelovelab/fishpond

Differential expression and allelic analysis, nonparametric statistics

Language: R - Size: 7.01 MB - Last synced: 8 days ago - Pushed: 9 months ago - Stars: 24 - Forks: 9

almeidasilvaf/bears

An R package to create gene expression atlases from bulk RNA-seq data on NCBI SRA

Language: R - Size: 5.17 MB - Last synced: 7 days ago - Pushed: about 1 year ago - Stars: 2 - Forks: 0

fmarotta/TReX

Find genes associated to a disease using a Transcriptome-Wide Association Study (TWAS).

Language: R - Size: 71.3 MB - Last synced: about 1 month ago - Pushed: about 1 year ago - Stars: 2 - Forks: 1

jonbra/jonbra.github.io Fork of mmistakes/minimal-mistakes

Testing how to use Jekyll and GitHub Pages to make a webiste.

Language: SCSS - Size: 97.1 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 1 - Forks: 2

insilico/inbix

In Silico Bioinformatics Toolbox

Language: C++ - Size: 10.2 MB - Last synced: about 2 months ago - Pushed: over 5 years ago - Stars: 3 - Forks: 1

ethanmclark1/kpnn

Knowledge-Primed Neural Network (KPNN) is a deep learning model designed to predict T-cell receptor (TCR) signaling using gene expression data. By leveraging domain knowledge in the form of a gene hierarchy, KPNN constructs a computational graph that mirrors the biological network, enabling interpretable results and improved accuracy.

Language: Python - Size: 89.9 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 0 - Forks: 0

uci-cbcl/D-GEX

Deep learning for gene expression inference

Language: Python - Size: 177 KB - Last synced: about 2 months ago - Pushed: about 5 years ago - Stars: 144 - Forks: 61

catavallejos/BASiCS

BASiCS: Bayesian Analysis of Single-Cell Sequencing Data. This is an unstable experimental version. Please see http://bioconductor.org/packages/BASiCS/ for the official release version

Language: R - Size: 90.4 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 83 - Forks: 16

christoforos-nikolaou/MolBioMedClass

Material, scripts and datasets for the MolBioMed Bioinformatics Class

Language: HTML - Size: 113 MB - Last synced: 2 months ago - Pushed: 2 months ago - Stars: 4 - Forks: 2

greenelab/cimr

tool for continuously integrated meta-resource

Language: Python - Size: 34.3 MB - Last synced: 4 days ago - Pushed: about 3 years ago - Stars: 1 - Forks: 2

dbcls/RefEx

RefEx: a reference gene expression dataset of mammalian tissues and cell lines measured by different methods

Language: R - Size: 81.6 MB - Last synced: about 1 month ago - Pushed: about 2 years ago - Stars: 6 - Forks: 0

pllittle/CSeQTL

Cell type-specific eQTL mapping

Language: HTML - Size: 702 KB - Last synced: 2 months ago - Pushed: 2 months ago - Stars: 3 - Forks: 1

jasdumas/shinyGEO

Gene Expression Omnibus Analysis with Shiny :microscope:

Language: CSS - Size: 359 MB - Last synced: 2 months ago - Pushed: almost 2 years ago - Stars: 39 - Forks: 48

Louise-la/RNA_seq_alignment_pipeline

RNA-Seq Pipeline for processing paired-end FASTQ transcripts generated from Illumina sequencing. The pipeline trims adapter sequences, aligns transcripts to a specified region of interest on the reference genome, and facilitates downstream analysis.

Language: Python - Size: 13.7 KB - Last synced: 2 months ago - Pushed: 3 months ago - Stars: 0 - Forks: 0

wanying4/Computation-Analysis-of-TCGA-Cancer-Data

This project focuses on analyzing gene expression data from TCGA cancer data to derive associations among genes as well as disease phenotypes, co-expression signatures, and survival analysis.

Language: MATLAB - Size: 472 KB - Last synced: 3 months ago - Pushed: about 1 year ago - Stars: 0 - Forks: 0

COMBINE-lab/terminus

Language: Rust - Size: 406 KB - Last synced: about 1 month ago - Pushed: almost 2 years ago - Stars: 55 - Forks: 3

KatrionaGoldmann/volcano3D

An R package to plot interactive three-way differential expression analysis

Language: HTML - Size: 219 MB - Last synced: 14 days ago - Pushed: 9 months ago - Stars: 31 - Forks: 7

skchronicles/RNA-seek

A comprehensive quality-control and quantification RNA-seq pipeline

Language: Python - Size: 10.3 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 10 - Forks: 10

AAlhendi1707/countToFPKM

Convert Counts to Fragments per Kilobase of Transcript per Million (FPKM)

Language: R - Size: 913 KB - Last synced: 19 days ago - Pushed: about 3 years ago - Stars: 57 - Forks: 14

kieranrcampbell/clonealign

Bayesian inference of clone-specific gene expression estimates by integrating single-cell RNA-seq and single-cell DNA-seq data

Language: R - Size: 4.11 MB - Last synced: about 4 hours ago - Pushed: over 3 years ago - Stars: 33 - Forks: 6

OceaneCsn/DIANE

Dashboard for the Inference and Analysis of Networks from Expression data

Language: R - Size: 106 MB - Last synced: 3 months ago - Pushed: 4 months ago - Stars: 13 - Forks: 4

JustinaZ/pcaReduce

Code to support: "pcaReduce: hierarchical clustering of single cell transcriptional profiles"

Language: R - Size: 2.94 MB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 19 - Forks: 11

bvieth/powsimR

Power analysis is essential to optimize the design of RNA-seq experiments and to assess and compare the power to detect differentially expressed genes. PowsimR is a flexible tool to simulate and evaluate differential expression from bulk and especially single-cell RNA-seq data making it suitable for a priori and posterior power analyses.

Language: HTML - Size: 72.5 MB - Last synced: 3 months ago - Pushed: 10 months ago - Stars: 102 - Forks: 24

TissUUmaps/TissUUmapsCore

TissUUmaps is a browser-based tool for fast visualization and exploration of millions of data points overlaying a tissue sample. TissUUmaps can be used as a web service or locally in your computer, and allows users to share regions of interest and local statistics.

Language: JavaScript - Size: 14.4 MB - Last synced: about 2 months ago - Pushed: over 1 year ago - Stars: 20 - Forks: 2

lucidrains/tf-bind-transformer

A repository with exploration into using transformers to predict DNA ↔ transcription factor binding

Language: Python - Size: 408 KB - Last synced: 15 days ago - Pushed: almost 2 years ago - Stars: 76 - Forks: 9

raysas/data-mining-gene-expression

Data Mining project (Fall2023) involving the classification and clustering of Sars-Cov-2 gene expression RNA-seq data

Language: R - Size: 22.6 MB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 0 - Forks: 0

SBRG/cobrame

A COBRApy extension for genome-scale models of metabolism and expression (ME-models)

Language: Python - Size: 1.61 MB - Last synced: about 2 months ago - Pushed: over 5 years ago - Stars: 32 - Forks: 18

WeiqiangZhou/BIRD

Big data Regression for predicting DNase I hypersensitivity

Language: C++ - Size: 10.9 MB - Last synced: 3 months ago - Pushed: about 1 year ago - Stars: 29 - Forks: 5

GfellerLab/EPIC

Repository for the R package EPIC, to Estimate the Proportion of Immune and Cancer cells from bulk gene expression data.

Language: R - Size: 15.9 MB - Last synced: 3 months ago - Pushed: 10 months ago - Stars: 69 - Forks: 23

ebi-gene-expression-group/selectBCM

An R tool to detect and correct batch-effects in gene-expression data (Microarray and bulk-RNAseq))

Language: R - Size: 129 MB - Last synced: about 1 month ago - Pushed: over 1 year ago - Stars: 2 - Forks: 1

beatrizsilva16/DGE_Analysis

This repository contains part of my MSc thesis wich adresses code for Differential Gene Expression (DGE) analysis using three methods, EdgeR, limma and DESeq2.

Size: 33 MB - Last synced: 3 months ago - Pushed: 4 months ago - Stars: 0 - Forks: 0

transbioZI/BioMM

BioMM: Biological-informed Multi-stage Machine learning framework for phenotype prediction using omics data

Language: HTML - Size: 12.2 MB - Last synced: 24 days ago - Pushed: over 1 year ago - Stars: 14 - Forks: 1

randel/MixRF

A random-forest-based approach for imputing clustered incomplete data

Language: R - Size: 182 KB - Last synced: about 2 months ago - Pushed: about 7 years ago - Stars: 34 - Forks: 14

th789/fflmediation

R package to predict gene feed forward loops using mediation analysis. Analyses integrate observed miRNA and mRNA expression data and database information on gene interactions.

Language: R - Size: 71.7 MB - Last synced: 3 months ago - Pushed: almost 2 years ago - Stars: 0 - Forks: 0

NKI-CCB/sobolev_alignment

Sobolev alignment of deep probabilistic models for comparing single cell profiles

Language: Python - Size: 3.76 MB - Last synced: 2 days ago - Pushed: 3 days ago - Stars: 5 - Forks: 2

tlatkowski/deep-learning-gene-expression

Deep learning methods for feature selection in gene expression autism data.

Language: Jupyter Notebook - Size: 42.4 MB - Last synced: 15 days ago - Pushed: almost 2 years ago - Stars: 32 - Forks: 17

SUwonglab/PECA

PECA is a software for inferring context specific gene regulatory network from paired gene expression and chromatin accessibility data

Language: MATLAB - Size: 19.3 MB - Last synced: 3 months ago - Pushed: 7 months ago - Stars: 38 - Forks: 6

nf-core/cageseq

CAGE-sequencing analysis pipeline with trimming, alignment and counting of CAGE tags.

Language: Nextflow - Size: 4.02 MB - Last synced: 7 days ago - Pushed: 7 days ago - Stars: 10 - Forks: 11

uc-bd2k/GREIN

GREIN : GEO RNA-seq Experiments Interactive Navigator

Language: HTML - Size: 38.2 MB - Last synced: about 2 months ago - Pushed: almost 5 years ago - Stars: 46 - Forks: 19

kieranrcampbell/switchde

Inference of switch-like differential expression along single-cell trajectories

Language: R - Size: 259 KB - Last synced: about 4 hours ago - Pushed: over 6 years ago - Stars: 19 - Forks: 4

arunkumarramesh/PAMP

Scripts for manuscript titled "Recognition of non-self is necessary to activate Drosophila’s immune response against an insect parasite"

Language: R - Size: 7.8 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 0 - Forks: 0

kmezhoud/canceR

:chart: The package is user friendly interface based on the cgdsr and other modeling packages to explore, compare, and analyse all available Cancer Data (Clinical data, Gene Mutation, Gene Methylation, Gene Expression, Protein Phosphorylation, Copy Number Alteration) hosted by the Computational Biology Center at Memorial-Sloan-Kettering Cancer Center (MSKCC).

Language: R - Size: 55.9 MB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 7 - Forks: 1

cbil-vt/DDN3

Differential Dependency Network

Language: Python - Size: 675 KB - Last synced: 4 months ago - Pushed: 4 months ago - Stars: 1 - Forks: 0

mathcom/CPR

Identification of heterogeneous biomarkers for breast cancer using Clustering and PageRank algorithms (bioinformatics)

Language: Python - Size: 71.7 MB - Last synced: 19 days ago - Pushed: almost 2 years ago - Stars: 7 - Forks: 3

aertslab/SCope

Fast visualization tool for large-scale and high dimensional single-cell data

Language: Python - Size: 32.9 MB - Last synced: about 2 months ago - Pushed: about 1 year ago - Stars: 68 - Forks: 14

jdieramon/jdieramon.github.io

Jose V. Die

Language: HTML - Size: 30.2 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 1 - Forks: 0

mojo8787/Comparative_ML_Analysis_Bioinformatics

A comprehensive analysis of gene expression data using machine learning techniques in Python and R, focusing on predictive modeling and data visualization

Language: R - Size: 1.88 MB - Last synced: 4 months ago - Pushed: 4 months ago - Stars: 1 - Forks: 0

Moha-cm/RNAseq-Analysis

Bulk Rna-seq Analysis

Language: HTML - Size: 4.4 MB - Last synced: 4 months ago - Pushed: 4 months ago - Stars: 0 - Forks: 0

wuaipinglab/ImmuCC

Cell-Centric View of Tissue Transcriptome Measuring Cellular Compositions of Immune Microenvironment From Mouse RNA-Seq Data.

Language: R - Size: 2.16 MB - Last synced: 3 months ago - Pushed: over 2 years ago - Stars: 22 - Forks: 25

andymckenzie/BRETIGEA

Brain Cell Type Specific Gene Expression Analysis

Language: R - Size: 14.4 MB - Last synced: 5 months ago - Pushed: 5 months ago - Stars: 11 - Forks: 1

victorkleb/scRNA-seq_Pr

Functions that implement the algorithms described in the preprint "Normalization and gene selection for single-cell RNA-seq UMI data using sampling-adjusted sums of squares of Pearson residuals with a Poisson model" and Jupyter notebooks that reproduce the results in the preprint and its Supplement 1

Language: Jupyter Notebook - Size: 8.82 MB - Last synced: 5 months ago - Pushed: 5 months ago - Stars: 0 - Forks: 0

BgeeDB/bgee_pipeline

Source code of the Bgee pipeline used to build the Bgee database

Language: Perl - Size: 1020 MB - Last synced: about 5 hours ago - Pushed: about 6 hours ago - Stars: 11 - Forks: 4

theojohn/QPCRinR

QPCRinR is a powerful web app for the analysis of RT-qPCR data with Linear Mixed Models. It is designed for testing multiple factors and combine experiments in a simple and interactive manner.

Language: R - Size: 5.5 MB - Last synced: 4 months ago - Pushed: 4 months ago - Stars: 0 - Forks: 0

cognoma/cancer-data

TCGA data acquisition and processing for Project Cognoma

Language: Jupyter Notebook - Size: 19.4 MB - Last synced: 15 days ago - Pushed: about 6 years ago - Stars: 21 - Forks: 28

amarinderthind/RNA-seq-tutorial-for-gene-differential-expression-analysis

This tutorial is created for educational purpose

Language: R - Size: 2.55 MB - Last synced: 5 months ago - Pushed: 5 months ago - Stars: 24 - Forks: 14

myles-lewis/glmmSeq

Gene-level general linear mixed model

Language: R - Size: 13.8 MB - Last synced: 14 days ago - Pushed: 9 months ago - Stars: 18 - Forks: 10

drostlab/myTAI

Evolutionary Transcriptomics with R

Language: R - Size: 71.9 MB - Last synced: 12 days ago - Pushed: about 1 month ago - Stars: 35 - Forks: 16

nlawlor/multiClust

multiClust: An R-package for Identifying Biologically Relevant Clusters in Cancer Transcriptome Profiles

Language: R - Size: 2.43 MB - Last synced: 2 months ago - Pushed: over 5 years ago - Stars: 4 - Forks: 2

f6v/AHTA_project

AHTA course project

Language: Shell - Size: 464 KB - Last synced: 6 months ago - Pushed: over 4 years ago - Stars: 0 - Forks: 0

amatov/NeurodegenerationDrugToxicology

Language: R - Size: 2.36 MB - Last synced: 6 months ago - Pushed: 6 months ago - Stars: 0 - Forks: 0

alexvpickering/GEOfastq

Quickly download fastq files associated with a GEO series

Language: R - Size: 85.9 KB - Last synced: 6 months ago - Pushed: over 2 years ago - Stars: 4 - Forks: 0

Related Keywords
gene-expression 365 bioinformatics 69 rna-seq 58 r 52 machine-learning 39 transcriptomics 31 single-cell 27 genomics 24 cancer 21 differential-expression 20 analysis 20 python 18 clustering 16 deep-learning 16 rna-seq-analysis 16 visualization 14 computational-biology 14 gene-expression-profiles 12 cancer-genomics 12 scrna-seq 11 microarray-data 11 feature-selection 11 normalization 11 gene 10 data-science 10 gtex 10 classification 10 bioconductor 10 tcga 10 bioinformatics-pipeline 9 microarray 9 biology 9 methodology 9 data-visualization 8 transcriptome 8 meta-analysis 8 rnaseq 8 tool 8 shiny 7 differential-gene-expression 7 random-forest 7 rstats 7 single-cell-rna-seq 7 gene-sets 7 neural-network 7 pipeline 7 survival-analysis 7 dataset 7 rna-seq-pipeline 7 gene-ontology 6 transcription-factors 6 methylation 6 genetics 6 pathway-analysis 6 variational-autoencoder 6 pca 6 tensorflow 6 rna-seq-data 6 data-analysis 6 network-analysis 6 breast-cancer 5 salmon 5 bioconductor-package 5 bioinformatics-analysis 5 gene-regulation 5 k-means-clustering 5 rephetio 5 supplement 5 systems-biology 5 autoencoder 5 ngs-analysis 5 statistics 5 gsea 5 dimensionality-reduction 5 chip-seq 5 deconvolution 4 single-cell-analysis 4 network-inference 4 gene-set-enrichment 4 survival 4 time-series 4 python3 4 transcription 4 gene-regulatory-network 4 microarray-data-analysis 4 dnase-seq 4 omics 4 differential-expression-analysis 4 tcga-data 4 enrichment-analysis 4 evolution 4 classifier 4 fasted-study 4 bxd 4 artificial-intelligence 4 notebook 4 reproducible-research 4 atac-seq 4 ngs 4 web-app 4