bicciatolab/popsicleR

popsicleR, a flexible R package aimed at providing most of the necessary quality controls and preliminary information for complete and detailed analysis of single cell RNA-seq data.

Language: R - Size: 48.3 MB - Last synced: 29 days ago - Pushed: 29 days ago - Stars: 24 - Forks: 7

federicomarini/HCAData

Access data from the Human Cell Atlas project, directly via R/Bioconductor

Language: R - Size: 7.37 MB - Last synced: 22 days ago - Pushed: 29 days ago - Stars: 8 - Forks: 2

federicomarini/ideal

Interactive Differential Expression AnaLysis - DE made accessible and reproducible

Language: R - Size: 24 MB - Last synced: 22 days ago - Pushed: 29 days ago - Stars: 29 - Forks: 7

ytakemon/1415-Col4a5xDO-Project

Scripts used for the 1415 Col4a5xDO project

Language: HTML - Size: 31.9 MB - Last synced: 30 days ago - Pushed: almost 3 years ago - Stars: 0 - Forks: 0

YogiOnBioinformatics/Teaching-Assistant-Computational-Genomics

Workshops, Course Schedule and Teaching Assistant Review from my time as a chosen Undergraduate Teaching Assistant for the University of Pittsburgh course, BIOSC1540 - Computational Genomics taught by Dr. Miler Lee.

Language: Shell - Size: 809 KB - Last synced: 30 days ago - Pushed: about 5 years ago - Stars: 0 - Forks: 1

y9c/cutseq

✂️ Trim sequencing adapters from NGS data automatically

Language: Python - Size: 2.89 MB - Last synced: 29 days ago - Pushed: 30 days ago - Stars: 3 - Forks: 0

COMBINE-lab/alevin-fry

🐟 🔬🦀 alevin-fry is an efficient and flexible tool for processing single-cell sequencing data, currently focused on single-cell transcriptomics and feature barcoding.

Language: Rust - Size: 4.08 MB - Last synced: 23 days ago - Pushed: 3 months ago - Stars: 152 - Forks: 15

swsoyee/Nucleotide-sequence-analysis-by-R

👨‍🎓(Rで)塩基配列解析

Language: R - Size: 960 KB - Last synced: about 1 month ago - Pushed: almost 6 years ago - Stars: 1 - Forks: 0

guma44/GEOparse

Python library to access Gene Expression Omnibus Database (GEO)

Language: Jupyter Notebook - Size: 13.3 MB - Last synced: 17 days ago - Pushed: about 1 month ago - Stars: 130 - Forks: 49

KevinMenden/scaden

Deep Learning based cell composition analysis with Scaden.

Language: Python - Size: 1.08 MB - Last synced: 29 days ago - Pushed: almost 3 years ago - Stars: 68 - Forks: 24

dtm2451/dittoSeq

Color blindness friendly visualization of single-cell and bulk RNA-sequencing data

Language: R - Size: 18.7 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 167 - Forks: 17

hayeonrjoe/RNA-seq

Record of my RNA sequencing analyses

Language: Jupyter Notebook - Size: 97.8 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 0 - Forks: 0

ibenjame/SM-PATseq

Snakemake workflow for SM-PATseq

Language: R - Size: 39.1 KB - Last synced: about 1 month ago - Pushed: over 1 year ago - Stars: 0 - Forks: 0

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: about 1 month ago - Pushed: about 1 month ago - Stars: 5 - Forks: 2

swsoyee/TCC-GUI

📊 Graphical User Interface for TCC package

Language: R - Size: 37.7 MB - Last synced: about 1 month ago - Pushed: 3 months ago - Stars: 43 - Forks: 18

PengBingming/idbview

A database and interactive platform for respiratory-associated disease.

Language: R - Size: 82 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 0 - Forks: 0

pachterlab/kallistobustools

kallisto | bustools workflow for pre-processing single-cell RNA-seq data

Size: 124 MB - Last synced: 22 days ago - Pushed: almost 2 years ago - Stars: 110 - Forks: 30

hamidghaedi/Enrichment-Analysis

From RNA-seq raw reads to enriched pathways by DEGs

Size: 719 KB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 28 - Forks: 14

esebesty/SplicingFactory

Splicing Diversity Analysis for Transcriptome Data

Language: R - Size: 1010 KB - Last synced: 11 days ago - Pushed: over 2 years ago - Stars: 4 - Forks: 0

sanjaynagi/rna-seq-pop

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

Language: Jupyter Notebook - Size: 99.6 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 17 - Forks: 6

davetang/rnaseq

RNA-seq analyses.

Language: Shell - Size: 5.13 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 6 - Forks: 5

poseidonchan/TAPE

Deep learning-based tissue compositions and cell-type-specific gene expression analysis with tissue-adaptive autoencoder (TAPE)

Language: Jupyter Notebook - Size: 161 MB - Last synced: 29 days ago - Pushed: about 2 months ago - Stars: 42 - Forks: 10

bpucker/teaching

This repository gives an overview of my teaching activities. Links to slides and data sets are included. Feel free to re-use my content.

Size: 268 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 40 - Forks: 8

kanaverse/kana

Single cell analysis in the browser

Language: JavaScript - Size: 128 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 131 - Forks: 12

slipnitskaya/regulAS

regulAS: A Bioinformatics Tool for the Integrative Analysis of Alternative Splicing Regulome using RNA-Seq data

Language: Python - Size: 609 KB - Last synced: 21 days ago - Pushed: 10 months ago - Stars: 1 - Forks: 0

anergictcell/Wigfiles

Language: Ruby - Size: 1.05 MB - Last synced: about 1 month ago - Pushed: over 7 years ago - Stars: 0 - Forks: 1

bixBeta/nextflow

nextflow RNAseq pipeline for GG02

Language: Nextflow - Size: 1.14 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 1 - Forks: 0

GReD-Clermont/sRNAPipe-cli

CLI tool for bioinformatic in-depth exploration of small RNA-seq data

Language: Perl - Size: 161 KB - Last synced: about 1 month ago - Pushed: about 2 months ago - Stars: 0 - Forks: 0

timbitz/Whippet.jl

Lightweight and Fast; RNA-seq quantification at the event-level

Language: Julia - Size: 21.1 MB - Last synced: 24 days ago - Pushed: 6 months ago - Stars: 101 - Forks: 21

zijianni/SpotClean

R package for decontaminating the spot swapping effect and recovering true expression in spatial transcriptomics data

Language: R - Size: 4.01 MB - Last synced: 21 days ago - Pushed: 7 months ago - Stars: 14 - Forks: 7

broadinstitute/wot

A software package for analyzing snapshots of developmental processes

Language: Jupyter Notebook - Size: 96.5 MB - Last synced: about 1 month ago - Pushed: over 1 year ago - Stars: 132 - Forks: 34

tjparnell/biotoolbox

Tools for querying and analysis of genomic data

Language: Perl - Size: 7.34 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 27 - Forks: 16

sequana/sequana

Sequana: a set of Snakemake NGS pipelines

Language: Jupyter Notebook - Size: 35.5 MB - Last synced: 12 days ago - Pushed: 2 months ago - Stars: 141 - Forks: 27

zhichaoxu04/MetaR2M

A novel meta-analysis framework of the R-squared (R2)-based mediation effect estimation for high-dimensional omics mediators

Language: R - Size: 1.27 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 1 - Forks: 0

HKU-BAL/Clair3-RNA

Clair3-RNA - a long-read small variant caller for RNA sequencing data

Language: Python - Size: 327 KB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 7 - Forks: 0

owkin/PyDESeq2

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

Language: Python - Size: 1.29 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 508 - Forks: 55

CCBR/rNA

Interactive report to assess the quality of large RNA-seq cohorts

Language: R - Size: 58 MB - Last synced: about 1 month ago - Pushed: almost 3 years ago - Stars: 1 - Forks: 2

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: about 1 month ago - Pushed: about 2 months ago - Stars: 10 - Forks: 5

sequana/rnaseq

RNA-seq, QC and differential analysis pipeline

Language: R - Size: 3.03 MB - Last synced: 17 days ago - Pushed: 3 months ago - Stars: 17 - Forks: 4

vivek37373/lncFETCHER

Bioinformatics pipeline for lncRNA prediction in Arabiodpsis thaliana

Language: Shell - Size: 13.7 KB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 1 - Forks: 0

NCBI-Hackathons/phenotypeXpression

Subclassification of disease states based on the intersection of literature and expression

Language: Python - Size: 14.6 MB - Last synced: about 2 months ago - Pushed: over 5 years ago - Stars: 12 - Forks: 3

OceanGenomics/mudskipper

A tool for projecting genomic alignments to transcriptomic coordinates

Language: Rust - Size: 18.3 MB - Last synced: 27 days ago - Pushed: 9 months ago - Stars: 30 - Forks: 7

gaarangoa/helicos-analysis-RNAseq

Simple workflow for the analysis of helicos rna seq reads

Language: Python - Size: 9.03 MB - Last synced: about 2 months ago - Pushed: over 6 years ago - Stars: 0 - Forks: 0

gagneurlab/OUTRIDER

OUTRIDER: OUTlier in RNA-seq fInDER is an R-based framework to find aberrantly expressed genes in RNA-seq data

Language: R - Size: 10.9 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 45 - Forks: 8

nf-core/scrnaseq

A single-cell RNAseq pipeline for 10X genomics data

Language: Nextflow - Size: 35 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 166 - Forks: 146

guigolab/grape-nf

An automated RNA-seq pipeline using Nextflow

Language: Nextflow - Size: 5.43 MB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 35 - Forks: 10

nf-core/circrna

circRNA quantification, differential expression analysis and miRNA target prediction of RNA-Seq data

Language: Nextflow - Size: 61.8 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 37 - Forks: 17

maxplanck-ie/snakepipes

Customizable workflows based on snakemake and python for the analysis of NGS data

Language: Python - Size: 39.7 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 369 - Forks: 85

twbattaglia/RNAseq-workflow

A repository for setting up a RNAseq workflow

Language: R - Size: 3.67 MB - Last synced: about 2 months ago - Pushed: about 7 years ago - Stars: 381 - Forks: 176

scRNA-tools/scRNA-tools

Table of software for the analysis of single-cell RNA-seq data.

Language: R - Size: 80.3 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 295 - Forks: 75

viktormiok/tigaR

Temporal Integrative Genomics Analysis in R

Language: R - Size: 926 KB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 3 - Forks: 1

GoekeLab/sg-nex-data

Nanopore RNA-Seq data from the Singapore Nanopore-Expression Project

Language: Jupyter Notebook - Size: 2.36 MB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 87 - Forks: 23

ZJUFanLab/scCATCH

Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data

Language: R - Size: 52 MB - Last synced: about 1 month ago - Pushed: about 1 year ago - Stars: 202 - Forks: 36

xuan13hao/data_analysis

Bioinformatic data analysis scripts and pipelines

Language: Jupyter Notebook - Size: 43.8 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 2 - Forks: 0

tianrui-qi/WOS-Analysis

Windows of susceptibility (WOS) analysis for brain diseases including zika and cognitive disorder.

Size: 3.48 MB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 0 - Forks: 0

oicr-gsi/starFusion

Workflow that takes a fastq pair or optionally a chimeric file from STAR and detects RNA-seq fusion events.

Language: WDL - Size: 20.3 MB - Last synced: about 2 months ago - Pushed: 11 months ago - Stars: 0 - Forks: 1

oicr-gsi/ercc

workflow for analysis of samples with RNA spike-ins (ERCC)

Language: wdl - Size: 87.9 KB - Last synced: about 2 months ago - Pushed: 12 months ago - Stars: 1 - Forks: 0

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 2 months ago - Pushed: 3 months ago - Stars: 725 - Forks: 156

yjzhang/uncurl_python

UNCURL is a tool for single cell RNA-seq data analysis.

Language: Jupyter Notebook - Size: 9.97 MB - Last synced: about 1 month ago - Pushed: almost 2 years ago - Stars: 15 - Forks: 1

jminnier/STARTapp

The START App: R Shiny Transcriptome Analysis Resource Tool

Language: HTML - Size: 93.5 MB - Last synced: 15 days ago - Pushed: over 3 years ago - Stars: 87 - Forks: 42

CRG-CNAG/CalliNGS-NF

GATK RNA-Seq Variant Calling in Nextflow

Language: Nextflow - Size: 29 MB - Last synced: about 2 months ago - Pushed: over 1 year ago - Stars: 129 - Forks: 52

cfarkas/annotate_my_genomes

A genome annotation pipeline that use short and long sequencing reads alignments from animal genomes

Language: Nextflow - Size: 29.4 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 22 - Forks: 4

ncats/cellranger-snakemake

Snakemake workflow and supporting files for running typical cellranger commands

Language: Perl - Size: 631 KB - Last synced: about 2 months ago - Pushed: almost 2 years ago - Stars: 1 - Forks: 1

rouskinlab/seismic-graph Fork of rouskinlab/dreem

Plotting engine for SEISMIC-RNA

Language: Jupyter Notebook - Size: 103 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 0 - Forks: 0

gruber-sciencelab/MAPP

🗺️ MAPP is a computational method which enables identification of binding motifs for RNA-binding proteins that shape pre-mRNA processing under specific conditions.

Language: Python - Size: 2.4 MB - Last synced: about 1 month ago - Pushed: 2 months ago - Stars: 7 - Forks: 5

statgen/popscle

A suite of population scale analysis tools for single-cell genomics data including implementation of Demuxlet / Freemuxlet methods and auxilary tools

Language: C++ - Size: 957 KB - Last synced: about 2 months ago - Pushed: about 3 years ago - Stars: 43 - Forks: 15

benben-miao/TOmicsVis

Transcriptomics Visualization R package.

Language: R - Size: 198 MB - Last synced: 21 days ago - Pushed: 5 months ago - Stars: 56 - Forks: 11

AngelCampos/txtools

An R package to process and analyze transcriptomic data

Language: R - Size: 12.6 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 9 - Forks: 2

RichardMatzko/BioNexusSentinel

A research biochemical network explorer and genetic cytohistological encyclopedia.

Language: Python - Size: 19.3 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 1 - Forks: 0

UMMS-Biocore/dolphinnext

A graphical user interface for distributed data processing of high throughput genomics

Language: PHP - Size: 59.2 MB - Last synced: about 2 months ago - Pushed: 9 months ago - Stars: 0 - Forks: 0

kpatel427/YouTubeTutorials

Language: R - Size: 9.17 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 212 - Forks: 107

Novartis/cellxgene-gateway

Cellxgene Gateway allows you to use the Cellxgene Server provided by the Chan Zuckerberg Institute (https://github.com/chanzuckerberg/cellxgene) with multiple datasets.

Language: Python - Size: 203 KB - Last synced: 15 days ago - Pushed: 3 months ago - Stars: 52 - Forks: 32

dputhier/pygtftk

A python package and a set of shell commands to handle GTF files

Language: Python - Size: 143 MB - Last synced: 27 days ago - Pushed: 5 months ago - Stars: 42 - Forks: 6

urmi-21/MetaOmGraph

MetaOmGraph: a workbench for interactive exploratory data analysis of large expression datasets

Language: Java - Size: 175 MB - Last synced: 2 months ago - Pushed: about 2 years ago - Stars: 32 - Forks: 14

DeplanckeLab/ASAP

ASAP : Automated Single-cell Analysis Pipeline

Language: Java - Size: 170 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 23 - Forks: 10

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: 22 days ago - Pushed: about 1 year ago - Stars: 2 - Forks: 0

lcscs12345/riboss

Comparison of the ability of open reading frames to recruit ribosomes within individual transcripts

Language: Python - Size: 213 KB - Last synced: 2 months ago - Pushed: about 3 years ago - Stars: 0 - Forks: 0

kstawiski/OmicSelector

OmicSelector - Environment, docker-based application and R package for biomarker signiture selection (feature selection) & deep learning diagnostic tool development from high-throughput high-throughput omics experiments and other multidimensional datasets. Initially developed for miRNA-seq, RNA-seq and qPCR.

Language: R - Size: 54.5 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 30 - Forks: 3

hasimhko/AlignStatExtract

Python scripts that extract alignment statistics from the output text files of HISAT2 and Samtools, and organize them into CSV files.

Language: Jupyter Notebook - Size: 314 KB - Last synced: 2 months ago - Pushed: over 2 years ago - Stars: 0 - Forks: 0

hasimhko/tr-honeybee-disease-prev

code and processed data used to produce the results and figures presented in Mayack and Hakanoglu.

Size: 7.81 KB - Last synced: 2 months ago - Pushed: over 1 year ago - Stars: 0 - Forks: 0

almeidasilvaf/HybridExpress_paper

Data and code associated with the paper "HybridExpress: an R/Bioconductor package for comparative transcriptomic analyses of hybrids and their progenitors"

Language: JavaScript - Size: 11.4 MB - Last synced: 22 days ago - Pushed: 2 months ago - Stars: 1 - Forks: 0

ndaniel/fusioncatcher

Finder of Somatic Fusion Genes in RNA-seq data

Language: Python - Size: 12.2 MB - Last synced: 2 months ago - Pushed: about 1 year ago - Stars: 135 - Forks: 67

adamd3/OrthoQuant

A Nextflow pipeline for performing bacterial RNA-Seq analysis without a reference genome.

Language: Nextflow - Size: 30.4 MB - Last synced: 2 months ago - Pushed: 2 months ago - Stars: 1 - Forks: 0

se7en69/bioinformatics-Practical-bootcamp-

This GitHub repository contains all the metadata, codes, and pipelines used in the 'Complete Bioinformatics Practical Bootcamp from Zero to Hero' course.

Language: Jupyter Notebook - Size: 129 MB - Last synced: 2 months ago - Pushed: 2 months ago - Stars: 0 - Forks: 0

LyonsLab/coge

CoGe (Comparative Genomics) Platform

Language: Perl - Size: 162 MB - Last synced: 2 months ago - Pushed: over 2 years ago - Stars: 44 - Forks: 17

uc-bd2k/GREIN

GREIN : GEO RNA-seq Experiments Interactive Navigator

Language: HTML - Size: 38.2 MB - Last synced: 10 days ago - Pushed: about 5 years ago - Stars: 47 - Forks: 19

jalwillcox/Calculate-PSI

A script used to calculate percent spliced-in (PSI) values from bulk RNA sequencing data.

Language: Shell - Size: 296 KB - Last synced: 2 months ago - Pushed: about 2 years ago - Stars: 2 - Forks: 1

Oshlack/combes-organoid-paper

Analysis code and output for the Combes kidney organoid scRNA-seq paper https://doi.org/10.1186/s13073-019-0615-0

Language: R - Size: 383 MB - Last synced: 2 months ago - Pushed: over 5 years ago - Stars: 6 - Forks: 2

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: 2 months ago - Pushed: 2 months ago - Stars: 1 - Forks: 2

Xinglab/SQUID

Stringent Quantitation of Unspliced Intron by Deep-sequencing

Language: Python - Size: 30 MB - Last synced: 2 months ago - Pushed: over 4 years ago - Stars: 2 - Forks: 2

SciLifeLab/NGI-RNAseq Fork of nf-core/rnaseq 📦

Nextflow RNA-Seq Best Practice analysis pipeline, used at the SciLifeLab National Genomics Infrastructure.

Language: Groovy - Size: 45.4 MB - Last synced: 2 months ago - Pushed: almost 6 years ago - Stars: 51 - Forks: 42

deweylab/MetaSRA-pipeline

MetaSRA: normalized sample-specific metadata for the Sequence Read Archive

Language: Python - Size: 27.5 MB - Last synced: 2 months ago - Pushed: 6 months ago - Stars: 42 - Forks: 15

pliu55/pram

An R/Bioconductor package to predict intergenic transcript models from RNA-seq

Language: R - Size: 3.8 MB - Last synced: about 1 month ago - Pushed: 2 months ago - Stars: 1 - Forks: 0

igsr/igsr_analysis

This repo contains code that is relevant for the analysis (Mapping, BAM qc, Variant Calling, Filtering etc...) of IGSR data

Language: Jupyter Notebook - Size: 15.6 MB - Last synced: 4 days ago - Pushed: over 1 year ago - Stars: 4 - Forks: 5

burkesquires/immunology-informatics 📦

Immunology Informatics - Big Data Analysis in Immunology - Tutorials

Language: R - Size: 278 MB - Last synced: about 1 month ago - Pushed: over 6 years ago - Stars: 21 - Forks: 6

tallulandrews/M3Drop

Language: R - Size: 5.51 MB - Last synced: 22 days ago - Pushed: 3 months ago - Stars: 28 - Forks: 9

urmi-21/COVID-19-RNA-Seq-datasets

A repository for sharing information on available COVID-19 RNA-Seq datasets

Language: Python - Size: 258 KB - Last synced: 2 months ago - Pushed: about 2 years ago - Stars: 77 - Forks: 22

deweylab/CellO

CellO: Gene expression-based hierarchical cell type classification using the Cell Ontology

Language: Jupyter Notebook - Size: 21.9 MB - Last synced: about 1 month ago - Pushed: 11 months ago - Stars: 60 - Forks: 11

avdmitry/long-lived_mammals

Transcriptomes comparison through GO ranks.

Language: Python - Size: 285 KB - Last synced: 2 months ago - Pushed: almost 2 years ago - Stars: 0 - Forks: 0

sacastiglioni/ClusteringSpartaco

SpaRTaCo is a spatial transcriptomic model (Sottosanti and Risso, 2023) that enables simultaneous clustering of genes and cells in tissue samples. This study explores the integration of external knowledge, such as manual cell-type annotations, to enhance gene clustering while reducing computational complexity.

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