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GitHub topics: differential-expression

Freddsle/FedProt

FedProt is a federated privacy-preserving version of state-of-the-art differential protein abundance analysis method DEqMS

Language: Jupyter Notebook - Size: 189 MB - Last synced at: 5 days ago - Pushed at: 5 days ago - Stars: 1 - Forks: 0

owkin/fedpydeseq2

A federated implementation of PyDESeq2, based on Substra.

Language: Python - Size: 2.22 MB - Last synced at: 7 days ago - Pushed at: 7 days ago - Stars: 11 - Forks: 0

owkin/PyDESeq2

A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.

Language: Python - Size: 1.37 MB - Last synced at: 7 days ago - Pushed at: 7 days ago - Stars: 645 - Forks: 74

federicomarini/ideal

Interactive Differential Expression AnaLysis - DE made accessible and reproducible

Language: R - Size: 26.3 MB - Last synced at: 10 days ago - Pushed at: 10 days ago - Stars: 29 - Forks: 7

SmythLab/limpa

Quantification and differential analysis of mass-spectrometry proteomics data, with probabilistic recovery of information from missing values using the detection probability curve.

Language: R - Size: 136 KB - Last synced at: 12 days ago - Pushed at: 12 days ago - Stars: 5 - Forks: 0

SydneyBioX/iDAS

Interpretable Differential Abundance signature

Language: R - Size: 11.5 MB - Last synced at: 13 days ago - Pushed at: 13 days ago - Stars: 0 - Forks: 0

saeyslab/multinichenetr

MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell transcriptomics data

Language: HTML - Size: 686 MB - Last synced at: 11 days ago - Pushed at: 4 months ago - Stars: 144 - Forks: 17

snakemake-workflows/rna-seq-kallisto-sleuth

A Snakemake workflow for differential expression analysis of RNA-seq data with Kallisto and Sleuth.

Language: Python - Size: 5.82 MB - Last synced at: 18 days ago - Pushed at: 19 days ago - Stars: 68 - Forks: 45

sing-group/my-brain-seq

myBrain-Seq: a Compi pipeline for miRNA-Seq data analysis in neuropsychiatry

Language: R - Size: 8.36 MB - Last synced at: 26 days ago - Pushed at: 26 days ago - Stars: 9 - Forks: 1

lpantano/DEGreport

Create a cromphensive report of DEG list coming from any analysis of RNAseq data

Language: R - Size: 51.7 MB - Last synced at: 25 days ago - Pushed at: about 1 year ago - Stars: 25 - Forks: 16

KatrionaGoldmann/volcano3D

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

Language: HTML - Size: 219 MB - Last synced at: 17 days ago - Pushed at: over 1 year ago - Stars: 37 - Forks: 8

kGorze/RNA-Seq-Nextflow

A reproducible, scalable, and containerized RNA-Seq analysis pipeline implemented in Nextflow. Features modular design with quality control (FastQC/MultiQC), alignment (STAR/HISAT2), quantification (Salmon/featureCounts), and differential expression analysis (DESeq2) components. Includes Docker containerization and CI/CD with GitHub Actions.

Language: HTML - Size: 8.63 MB - Last synced at: 28 days ago - Pushed at: about 1 month ago - Stars: 0 - Forks: 0

nf-core/differentialabundance

Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq

Language: Nextflow - Size: 9.82 MB - Last synced at: 3 days ago - Pushed at: 3 days ago - Stars: 78 - Forks: 48

stemangiola/tidybulk

Brings bulk and pseudobulk transcriptomics to the tidyverse

Language: R - Size: 99.3 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 171 - Forks: 24

dmcable/spacexr

Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial transcriptomics

Language: HTML - Size: 538 MB - Last synced at: about 1 month ago - Pushed at: 11 months ago - Stars: 348 - Forks: 79

pblumenkamp/Curare

Curare - A customizable and reproducible analysis pipeline for RNA-Seq experiments

Language: Python - Size: 47.2 MB - Last synced at: 5 days ago - Pushed at: about 1 month ago - Stars: 8 - Forks: 1

sanjaynagi/rna-seq-pop

Snakemake workflow for Illumina RNA-sequencing experiments - extract population genomic signals from RNA-Seq data

Language: Jupyter Notebook - Size: 99.5 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 18 - Forks: 9

nf-core/lncpipe Fork of likelet/LncPipe

UNDER DEVELOPMENT--- Analysis of long non-coding RNAs from RNA-seq datasets

Language: Nextflow - Size: 29.5 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 34 - Forks: 25

caranathunge/promor

A comprehensive R package for label-free proteomics data analysis and modeling

Language: R - Size: 161 MB - Last synced at: 5 days ago - Pushed at: almost 2 years ago - Stars: 15 - Forks: 5

jr-leary7/scLANE-Revision

code and data relating to the scLANE revision

Language: HTML - Size: 411 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 0 - Forks: 0

INMEGEN/Pipelines_Inmegen

Flujos de trabajos desarrollados y automatizados en el Intituto Nacional de Medicina Genómica para el procesamiento de datos genómicos y transcriptómicos.

Language: Nextflow - Size: 7.37 MB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 9 - Forks: 0

parashardhapola/scarf

Toolkit for highly memory efficient analysis of single-cell RNA-Seq, scATAC-Seq and CITE-Seq data. Analyze atlas scale datasets with millions of cells on laptop.

Language: Python - Size: 32.8 MB - Last synced at: 28 days ago - Pushed at: 28 days ago - Stars: 100 - Forks: 12

mritchielab/GlimmaV2

interactive plots for differential expression analysis

Language: JavaScript - Size: 34.4 MB - Last synced at: 20 days ago - Pushed at: about 2 months ago - Stars: 32 - Forks: 9

jaydu1/causarray

causarray is a Python module for simultaneous causal inference with an array of outcomes.

Language: Jupyter Notebook - Size: 20.6 MB - Last synced at: 17 days ago - Pushed at: about 2 months ago - Stars: 2 - Forks: 0

theislab/diffxpy

Differential expression analysis for single-cell RNA-seq data.

Language: Python - Size: 1.71 MB - Last synced at: 11 days ago - Pushed at: 3 months ago - Stars: 197 - Forks: 23

noamteyssier/adpbulk

pseudobulking on an AnnData object

Language: Python - Size: 21.5 KB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 29 - Forks: 1

jr-leary7/scLANE

Characterize gene dynamics over trajectories using GLMs, GEEs, & GLMMs.

Language: R - Size: 31.3 MB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 10 - Forks: 3

BaderLab/scClustViz

Explore and share your scRNAseq clustering results

Language: R - Size: 696 MB - Last synced at: about 1 month ago - Pushed at: over 1 year ago - Stars: 50 - Forks: 9

sing-group/compi-rnaseq-pipeline

A compi RNA-Seq pipeline to perform differential expression.

Language: Shell - Size: 68.4 KB - Last synced at: 27 days ago - Pushed at: 27 days ago - Stars: 0 - Forks: 0

ejmackrell/tidyproteomics-interactive

Interactive Shiny application for tidyproteomics

Language: R - Size: 6.77 MB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 9 - Forks: 0

Liuy12/SCdeconR

Deconvolution of bulk RNA-seq data using single-cell RNA-seq data as reference

Language: HTML - Size: 38.8 MB - Last synced at: 10 days ago - Pushed at: 10 months ago - Stars: 4 - Forks: 0

mejian1/ExopherGeneExpressionProfiling

Bioinformatic analysis of gene expression microarray profiles and DGEs on R and R studio

Language: Jupyter Notebook - Size: 1.16 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 2 - Forks: 0

arunbodd/Serum-Proteomics

This repository Contains analysis pipeline for processing and analyzing mass spectrometry proteomics data

Language: HTML - Size: 1.08 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 0

merlinis12/RNA-Seq-Data-Analysis-in-R

RNA-Seq Data Analysis in R: From Raw Counts to Differential Expression Analysis

Language: HTML - Size: 4.05 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 0

NIB-SI/CampyDEA

Campylobacter jejuni biofilm differential expression analysis (DEA)

Language: R - Size: 19.5 KB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 0

btmonier/vidger

Make rapid visualizations of RNA-seq data in R

Language: R - Size: 4.25 MB - Last synced at: 15 days ago - Pushed at: almost 6 years ago - Stars: 19 - Forks: 6

AlexsLemonade/refinebio-examples

Example workflows for refine.bio data

Language: HTML - Size: 783 MB - Last synced at: 29 days ago - Pushed at: 4 months ago - Stars: 11 - Forks: 6

jcaperella29/Differential-analysis-on-scRNA-seq-data-in-R

using Seurat to perform DE analysis on scRNA seq data

Language: R - Size: 2.93 KB - Last synced at: 2 months ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 0

ncrna/Yeskit

Yet another single-cell analysis toolkit

Language: HTML - Size: 4.55 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 7 - Forks: 0

cbib/DIMet

Differential analysis of targeted Isotope-labeled Metabolomics data

Language: Python - Size: 4.82 MB - Last synced at: 22 days ago - Pushed at: 8 months ago - Stars: 4 - Forks: 2

Katerina10-cloud/CN-aware-DGE

Language: Jupyter Notebook - Size: 261 MB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 0 - Forks: 0

Kubilay-Meydan/Repro-Hackathon-2024

A bioinformatics pipeline for RNA-Seq analysis of Staphylococcus aureus persisters under antibiotic stress, based on Peyrusson et al. (2020). Built with Nextflow and Docker for reproducibility.

Language: R - Size: 1.9 MB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 0 - Forks: 0

heiniglab/scPower

Experimental design framework for scRNAseq population studies (eQTL and DE)

Language: R - Size: 190 MB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 45 - Forks: 5

noamteyssier/idea

Integrated Differential Expression and Annotation

Language: HTML - Size: 2.63 MB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 4 - Forks: 0

marromesc/miRPIPE

Simple scripts to parallelize miRNA analysis with sRNAtoolbox performed for my Master thesis.

Language: Shell - Size: 59.6 KB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 1 - Forks: 0

wckdouglas/diffexpr

Porting DESeq2 into python via rpy2

Language: Python - Size: 678 KB - Last synced at: about 1 month ago - Pushed at: almost 2 years ago - Stars: 68 - Forks: 20

nunofonseca/irap

integrated RNA-seq Analysis Pipeline

Language: R - Size: 2.13 GB - Last synced at: 5 months ago - Pushed at: over 6 years ago - Stars: 83 - Forks: 34

htpusa/moomin.jl

From differential gene expression to metabolic changes

Language: Julia - Size: 119 KB - Last synced at: about 1 month ago - Pushed at: over 2 years ago - Stars: 4 - Forks: 1

Cannizzaro-reaction/RNA-seq_workflow

course project for BIO2503

Language: Shell - Size: 3.27 MB - Last synced at: 6 months ago - Pushed at: 11 months ago - Stars: 2 - Forks: 0

fperraudeau/singlecellworkflow

Tutorial for the analysis of scRNA-seq data in R

Language: TeX - Size: 148 MB - Last synced at: 4 months ago - Pushed at: over 6 years ago - Stars: 17 - Forks: 6

DeplanckeLab/ASAP

ASAP : Automated Single-cell Analysis Pipeline

Language: Java - Size: 170 MB - Last synced at: 7 months ago - Pushed at: 7 months ago - Stars: 23 - Forks: 10

htpusa/moomin

MOOMIN is a tool for analysing differential expression data

Language: MATLAB - Size: 95.7 KB - Last synced at: about 1 month ago - Pushed at: almost 5 years ago - Stars: 7 - Forks: 0

SotirisTouliopoulos/2pfsb_dea_workshop

Data & Code for a Differential Expression Analysis workshop

Language: TeX - Size: 14.1 MB - Last synced at: 8 months ago - Pushed at: 8 months ago - Stars: 1 - Forks: 0

lingfeiwang/normalisr

Causal inference, differential expression, and co-expression for scRNA-seq

Language: Python - Size: 24.5 MB - Last synced at: 1 day ago - Pushed at: over 3 years ago - Stars: 18 - Forks: 3

sunyumail93/easyRNAseqDE

An R package for RNAseq differential expression analysis and visualization, in an easy and reproducible way.

Language: R - Size: 55.5 MB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 4 - Forks: 0

fjcamlab/deco

DECO :: Decomposing heterogeneous population cohorts for patient stratification and discovery of biomarkers using omic data profiling. R package

Language: R - Size: 16.9 MB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 4 - Forks: 1

jackbibby1/SCPA

R package for pathway analysis in scRNA-seq data

Language: R - Size: 41.2 MB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 57 - Forks: 5

himelmallick/Tweedieverse

Differential analysis of multi-omics data based on the Tweedie distribution

Language: R - Size: 165 KB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 27 - Forks: 6

theislab/batchglm

Fit generalized linear models in python.

Language: Python - Size: 3.17 MB - Last synced at: about 2 months ago - Pushed at: about 2 years ago - Stars: 27 - Forks: 10

ConorGilesDoran/MSc_Thesis_Transcriptomics

Repository for all R scripts and results associated with my research dissertation for the MSc Bioinformatics and Computational Biology degree in University College Cork, 2022.

Language: R - Size: 153 MB - Last synced at: 10 months ago - Pushed at: over 2 years ago - Stars: 1 - Forks: 0

Robaina/Dokdonia

Source code employed in the study: Gene expression response to temperature acclimation in a model photoheterotrophic marine flavobacterium

Language: Python - Size: 239 MB - Last synced at: 7 days ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0

labjc/PyDEG

Differential expression analysis for bulk RNA-seq data.

Language: Python - Size: 25.4 KB - Last synced at: 11 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0

lisiarend/PRONE

R Package for preprocessing, normalizing, and analyzing proteomics data

Language: R - Size: 40.4 MB - Last synced at: 12 months ago - Pushed at: 12 months ago - Stars: 0 - Forks: 0

tony-zhelonkin/Hobotnica_baySeq_ed

Bioinformatics Institure semester project

Language: R - Size: 235 MB - Last synced at: 11 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0

CCBR/MAAPster

MAAPster is a comprehensive tool to perform transcriptome analysis of human or mouse Affymetrix gene expression data

Language: R - Size: 50.5 MB - Last synced at: 12 months ago - Pushed at: over 1 year ago - Stars: 9 - Forks: 6

LenisLin/RankComp

Differential expression genes (DEGs) obtaining methods by R language.

Language: R - Size: 8.06 MB - Last synced at: 11 months ago - Pushed at: over 3 years ago - Stars: 1 - Forks: 0

UBrau/ProcessDE

Processing RNAseq data for gene expression analysis

Language: R - Size: 30.9 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 1 - Forks: 0

nf-core/slamseq Fork of t-neumann/slamseq

SLAMSeq processing and analysis pipeline

Language: Nextflow - Size: 4.46 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 5 - Forks: 7

danilotat/UTR_add_extend_GTF

Provided tool will add explicit 3'UTR and extends it into a valid Ensembl GTF file. It's useful for 3'RNAseq when 3' coordinates might not be as good as you expect.

Language: Python - Size: 34.2 KB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 5 - Forks: 2

grimmlab/BookChapter-RNA-Seq-Analyses

Best practice RNA-Seq analysis pipeline for reference-based RNA-Seq analysis

Language: Shell - Size: 12.7 MB - Last synced at: about 1 year ago - Pushed at: almost 4 years ago - Stars: 37 - Forks: 12

madsporse/cellex-gsea

R package to calculate cell specific expression of genes, using an input gene set and a CELLEX dataset.

Language: R - Size: 121 MB - Last synced at: about 1 year ago - Pushed at: about 2 years ago - Stars: 0 - Forks: 0

metavannier/scRNAseq_analysis_workflow

Single-Cell RNA-seq analysis workflow for 10x Genomics data

Language: R - Size: 2.16 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 1 - Forks: 0

stemangiola/bioc_2020_tidytranscriptomics

Workshop on tidytranscriptomics: Performing tidy transcriptomics analyses with tidybulk, tidyverse and tidyheatmap

Language: R - Size: 48.5 MB - Last synced at: 10 months ago - Pushed at: over 4 years ago - Stars: 27 - Forks: 10

mariachiaragrieco/bulk-RNAseq

bulk-RNAseq analysis for Transcriptomics Course 2021 (MSc Bioinformatics for Computational Genomics)

Language: HTML - Size: 5.96 MB - Last synced at: about 1 year ago - Pushed at: about 3 years ago - Stars: 0 - Forks: 0

bhklab/survcomp

R package for performance assessment and comparison for survival analysis

Language: C++ - Size: 4.71 MB - Last synced at: 28 days ago - Pushed at: about 3 years ago - Stars: 9 - Forks: 7

QBRC/QBRC_BulkRnaSeqDE Fork of yunguan-wang/QBRC_BulkRnaSeqDE

Analysis pipeline for bulk RNA-seq data

Language: Python - Size: 216 KB - Last synced at: about 1 year ago - Pushed at: over 2 years ago - Stars: 2 - Forks: 0

xzhoulab/iDEA-Analysis

Language: R - Size: 12.1 MB - Last synced at: about 1 year ago - Pushed at: almost 5 years ago - Stars: 7 - Forks: 2

jazminvaleriano/RNAseq-differential-expression

Assembly of RNA transcriptome, differential expression analysis, identification of lncRNA candidates based on genomic context and protein coding potential.

Language: Shell - Size: 272 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0

urmi-21/csvtoxl

Easily convert csv/tsv to excel (xlsx) taking care of gene names or other data vulnerable to auto conversion by MS-Excel

Language: Java - Size: 1.88 MB - Last synced at: about 1 year ago - Pushed at: over 4 years ago - Stars: 3 - Forks: 0

tarsus-lam/openai-jupyter-integration

Performing scRNA-Seq analysis using OpenAI API calls

Language: Jupyter Notebook - Size: 78.4 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0

LeonardoHDL/GP2_Transcriptomics_PDD_PDNCI

This repository contains scripts for differential expression analysis (DEA). From data handling to the DEA. This analysis were made to test DEG from PDD (Parkinson's Disease Dementia)

Language: Jupyter Notebook - Size: 576 KB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0

aidenfmunro/Differentiator

Language: C++ - Size: 1.65 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 1 - Forks: 0

annakatsiki/dexplore

DExplore: an online tool for detecting differentially expressed genes from mRNA microarray experiments (www.dexplore.gr, https://hub.docker.com/r/akatsiki/dexplore)

Language: R - Size: 1.03 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 1 - Forks: 1

showteeth/DEbPeak

DEbPeak - Analyze and integrate multi-omics to unravel the regulation of gene expression.

Language: HTML - Size: 94.4 MB - Last synced at: 5 months ago - Pushed at: over 1 year ago - Stars: 8 - Forks: 1

ReaganGen/GEAnaly

An R package for analysis of gene expression matrix with differential expression analysis, enrichment analysis and correlation analysis.

Language: R - Size: 18.7 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0

shao-lab/MAnorm

A robust model for quantitative comparison of ChIP-Seq data sets.

Language: Python - Size: 6.87 MB - Last synced at: over 1 year ago - Pushed at: almost 5 years ago - Stars: 21 - Forks: 5

Pelmeshka127/Differenciator-Machine-Son

Машина Дифференцирования функций, сынок!

Language: C++ - Size: 1.73 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 0

fcomitani/tapir

Transcriptiome Analysis in Python Imported from R

Language: Python - Size: 9.11 MB - Last synced at: 19 days ago - Pushed at: over 2 years ago - Stars: 2 - Forks: 0

SiWolf/SCORE

SCORE - a consensus tool for detecting differentially expressed genes in bacteria

Language: R - Size: 1.26 MB - Last synced at: over 1 year ago - Pushed at: over 4 years ago - Stars: 5 - Forks: 4

Russel88/DAtest

Compare different differential abundance and expression methods

Language: R - Size: 1.54 MB - Last synced at: over 1 year ago - Pushed at: about 3 years ago - Stars: 46 - Forks: 9

fanglab/BEAST

Bacterial Epigenomics Analysis SuiTe

Language: R - Size: 360 KB - Last synced at: over 1 year ago - Pushed at: about 5 years ago - Stars: 9 - Forks: 2

Bohdan-Khomtchouk/Microscope

ChIP-seq/RNA-seq analysis software suite for gene expression heatmaps

Language: R - Size: 4.14 MB - Last synced at: over 1 year ago - Pushed at: over 7 years ago - Stars: 23 - Forks: 16

Bohdan-Khomtchouk/shinyDE

Web server for all differential expression (DE) callers

Language: R - Size: 1.51 MB - Last synced at: over 1 year ago - Pushed at: over 7 years ago - Stars: 2 - Forks: 1

arnikz/EMF_data_mining

Command-line tools in R/Python to analyze semi-quantitative mass spectrometry data on EMF exposures

Language: R - Size: 23.9 MB - Last synced at: over 1 year ago - Pushed at: about 5 years ago - Stars: 1 - Forks: 0

rbr7/single-cell_rna-seq

Algorithms and functions for working with single cell RNA-seq datasets. (in progress)

Language: R - Size: 4.88 KB - Last synced at: over 1 year ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 0

tdayris-perso/rna-dge-salmon-deseq2 📦

Perform differential analysis from FastQ files with Salmon, tximport, and DESeq2

Language: Python - Size: 3.15 MB - Last synced at: over 1 year ago - Pushed at: over 3 years ago - Stars: 2 - Forks: 2

mperalc/Perez-Alcantara-et-al-2018

Scripts used in "Patterns of Differential Gene Expression in a Cellular Model of Human Islet Development, and Relationship to Type 2 Diabetes Predisposition"

Language: R - Size: 57.6 KB - Last synced at: over 1 year ago - Pushed at: about 7 years ago - Stars: 1 - Forks: 0

csbbcompbio/CSBB-v3.0

CSBB - Computational Suite For Bioinformaticians and Biologists

Language: Perl - Size: 4.7 MB - Last synced at: over 1 year ago - Pushed at: almost 7 years ago - Stars: 6 - Forks: 7

ReemaSingh/Dictostelium_Differential_Expression_Experiment

Identify Differential Expressed Genes in DgcA null mutant and Knock-out samples in Dictyostelium discoideum. The same workflow has been used for the differential expression analysis of Polysphondylium pallidum.

Language: R - Size: 12.7 KB - Last synced at: over 1 year ago - Pushed at: over 4 years ago - Stars: 0 - Forks: 0

kn-bibs/pathways-analysis

Testing, development environment for a new project of KN BIBS

Language: Python - Size: 147 KB - Last synced at: over 1 year ago - Pushed at: over 6 years ago - Stars: 2 - Forks: 10

Related Keywords
differential-expression 172 rna-seq 44 bioinformatics 41 transcriptomics 25 r 25 gene-expression 20 rna-seq-analysis 19 single-cell 18 pipeline 13 visualization 12 scrna-seq 11 deseq2 10 single-cell-rna-seq 9 normalization 8 proteomics 7 genomics 7 nextflow 7 bioconductor 7 shiny 7 clustering 6 chip-seq 6 gene-set-enrichment 6 edger 6 python 6 bioinformatics-pipeline 6 rna-seq-pipeline 6 rnaseq 6 snakemake 5 enrichment-analysis 5 differential-expression-analysis 5 workflow 5 mass-spectrometry 4 limma 4 gsea 4 atac-seq 4 r-package 4 bioinformatics-analysis 4 pca 4 ngs-analysis 4 pathway-analysis 4 differential-gene-expression 4 reproducibility 4 ngs 4 docker 4 statistics 4 enrichment 3 microarray-data-analysis 3 seurat 3 rnaseq-analysis 3 interactive-visualizations 3 machine-learning 3 microbiome 3 metagenomics 3 biomarkers 3 rna 3 bulk-rna-seq 3 deseq2-analysis 3 ngs-pipeline 3 statistical-analysis 3 network-analysis 3 genes 3 rna-seq-data 3 differential-analysis 3 nf-core 3 microarray 3 tcga 3 heatmap 3 limma-voom 2 publicdata 2 differential-dispersion 2 ncbi-geo 2 rshinyapp 2 differential-distribution 2 shiny-apps 2 differential-variability 2 scrna-seq-analysis 2 tensorflow 2 dimension-reduction 2 causal-inference 2 differentially-expressed-genes 2 umap 2 rshiny 2 single-cell-genomics 2 pseudotime 2 quality-control 2 generalized-linear-models 2 alignment 2 transcriptome-assembly 2 differential-abundance-analysis 2 bioinformatics-tool 2 analysis 2 co-expression 2 transcription-factors 2 constraint-based-modeling 2 gene 2 srna 2 cancer 2 metabolomics 2 epigenetics 2 computational-biology 2