rna-seq-data

There are 5 repositories under rna-seq-data topic.

seandavi / awesome-single-cell
Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
rna-seq-data gene-expression scrna-seq-data bioinformatics awesome-list dimensionality-reduction cell-cycle atac-seq analysis cell-differentiation python clustering cell-populations gene-expression-profiles rna-seq-experiments cell-clusters analysis-pipeline data-integration data-visualization single-cell
2902
hbctraining / DGE_workshop
workshop dge rna-seq-data deseq2
Language:HTML 353
federicomarini / awesome-expression-browser
😎 A curated list of software and resources for exploring and visualizing (browsing) expression data 😎
gene-expression rna-seq-data expression-browser bioinformatics awesome-list gene-expression-profiles atlas humancellatlas data-visualization data-exploration
124
nsalomonis / altanalyze
AltAnalyze is a multi-functional and easy-to-use software package for automated single-cell and bulk gene and splicing analyses. Easy-to-use precompiled graphical user-interface versions available from our website.
rna-seq-data alternative-splicing scrna-seq-data bioinformatics-pipeline clustering pathway-analysis network-analysis splicing-quantification splicing-visualization python fastq-anaysis bam-files single-cell-splicing cell-cycle cell-type-classification marker-gene-analysis graphical-interface command-line-tool pagerank louvain-community-detection
Language:Python 91
federicomarini / GeneTonic
Enjoy your transcriptomic data and analysis responsibly - like sipping a cocktail
rna-seq-data rna-seq-analysis transcriptomics r shiny transcriptome reproducible-research gui user-friendly bioconductor bioconductor-package functional-enrichment-analysis pathway-analysis gene-expression data-visualization data-exploration
Language:R 75
hbctraining / Intro-to-R-with-DGE
rna-seq-data workshop dge deseq2
Language:R 56
federicomarini / pcaExplorer
pcaExplorer - Interactive exploration of Principal Components of Samples and Genes in RNA-seq data
principal-components rna-seq-data rna-seq-analysis r shiny transcriptome reproducible-research user-friendly bioconductor
Language:R 52
uc-bd2k / GREIN
GREIN : GEO RNA-seq Experiments Interactive Navigator
rna-seq geo bioinformatics-pipeline bioinformatics-analysis rna-seq-pipeline rna-seq-data rna-seq-analysis graphical-interface r shiny-apps gene-expression-omnibus interactive-visualizations interactive-analysis processing geo-data-processing grein gene-expression
Language:HTML 47
proActiv
GoekeLab / proActiv
Estimation of Promoter Activity from RNA-Seq data
promoter-activity promoter-annotation rna-seq-data r genomics alternative-promoters
Language:R 44
nuno-agostinho / psichomics
Interactive R package to quantify, analyse and visualise alternative splicing
splicing-quantification data-analyses alternative-splicing tcga differential-splicing-analysis gtex survival bioconductor sra recount2 differential-gene-expression gene-expression rna-seq-data vast-tools
Language:R 33
Transipedia / dekupl
Exhaustive capture of biological variation in RNA-seq data through k-mer decomposition.
rna-seq-data rna-seq bioinformatics pipeline differential-expression
15
egaffo / CirComPara
:microscope: A multi-method comparative bioinformatics pipeline to detect and study circRNAs from RNA-seq data
bioinformatics-pipeline bioinformatics rna-seq circrna rna-seq-data rna-seq-analysis rna-seq-pipeline gene-expression circrnas circular-rna transcriptomics circseq
Language:R 14
theislab / MetaMap
The code and analyses accompanying the manuscript “MetaMap: An atlas of metatranscriptomic reads in human disease-related RNA-seq data”.
metatranscriptome rna-seq-data metamap
Language:HTML 11
knowmics-lab / RNAdetector
RNAdetector: a free user-friendly and stand-alone software for RNA-Seq data analysis
rna-seq-analysis rna-seq-data ncrnas coding-rnas pathway-analysis mirnas docker-desktop mrnas
Language:JavaScript 8
immunogenomics / amp_phase1_ra_viewer
🌻 View single-cell RNA-seq and mass cytometry data in synovial tissues from patients with RA or OA.
r cytof-data rna-seq-data data-science data-visualization single-cell-rna-seq shiny-apps
Language:R 3
MG-RAST / myM5NR
M5NRv2 -- non-redundant protein and rRNA database integration
protein-sequences rna-seq-data
Language:Perl 3
sing-group / dewe
DEWE (Differential Expression Workflow Executor) is an open source application for easily executing Differential Expression analyses in RNA-Seq data.
rna-seq rna-seq-pipeline rna-seq-data differential-expression aibench java
Language:Java 3
tAndreani / RNAseQTL
Collection of scripts to map eQTL with RNAseq Data and Genotype by Sequencing
genetic-variants map-eqtl pipeline rna-seq-data shell
Language:R 3
adeschen / SignatureHeatmap
R package to create heatmaps using signature gene list and transcriptomic data
r heatmap heatmap-visualization classification rna-seq-data gene-list gene-signature
Language:R 2
wilkinsonlab / epigenomics_pipeline
Epigenomics workflow system for the semi-automated analysis of NGS data
epigenomics-workflow rna-seq-data chip-seq galaxy jupyter docker-image notebooks docker-commands brassica-rapa data-analysis
Language:Jupyter Notebook 2
bissessk / RNA-seq-Analysis-of-Control-and-NRDE2-depleted-Breast-Cancer-Cells
Performed a differential gene expression analysis with RNA-seq that compares the expression in human control breast cancer cell lines with lines treated by silencing the NRDE2 gene. A Salmon + tximport + DESeq2 workflow was conducted to pursue this.
next-generation-sequencing ngs ngs-analysis rna-seq rnaseq rna-seq-analysis rna-seq-pipeline rna-seq-data rna-sequencing salmon salmon-deseq2 tximport deseq2 r rstudio hpc unix linux bioinformatics bioinformatics-pipeline
Language:Shell 1
elizabethpermina / RNA-Seq-tutorial-Otago-2017
RNA-Seq tutorial materials - slides, training data, code lines
sequence files rna-seq-data
Language:HTML 1
fomightez / simulated_data
A repository for code that generates various simulated data.
evolutionary expression gene phylogenetics phylogenomics python r rna-seq-analysis rna-seq-data simulated-data
Language:Python 1
keslingmj / RNASeq
Analyses of RNA-Seq Data
rna-seq-data genomics genetic-analysis
Language:CSS 1
kevincjnixon / BinfTools
Useful R functions for Multi-omics analyses
volcano-plot rna-seq-data ma-plot rna-seq-analysis go-analysis
Language:R 1
kjohnsen / MMAPPR2data
Sample Data for MMAPPR2
bioconductor bioinformatics experimenthub rna-seq-data
Language:R 1
Marcrockhat / imprintia
This is a repository for a pipeline used to identify imprinted genes or allele specific expressions using Illumina next generation sequencing (NGS) platform. This repository contains a work in progress to identify imprinted genes in polyploid species.
snp-call species rna-seq-data dna-seq pipeline gene
Language:R 1
mchialva / RNA2M
Scripts used to analyze tomato meta-transcriptome from short-read host RNA-seq data in Chialva et al. (2020)
rna-seq-data meta-transcriptome plant-microbe-interactions
Language:R 1
sivkri / miRNASeq-DE-Analysis-QC
Performing RNA-Seq data analysis and quality control using DESeq2 in R.
deseq2 deseq2-analysis differential-expression-analysis quality-control rna-seq rna-seq-analysis rna-seq-data rna-seq-pipeline visualization
Language:R 1
sohilsshah91 / nyhais-tcga-series-kmeans
machine-learning clustering cancer-genomics liver-cancer rna-seq-data elbow-method one-hot-encoding kmeans-clustering sparse-pca
Language:Jupyter Notebook 1
SoniaRuiz / rytenlab-website
Website (.NET Core MVC architecture) for the RytenLab team (https://rytenlab.com/). It also contains the specification for the .NET Core REST API of the RytenLab Team (https://rytenlab.com/swagger/index.html).
ajax-form bootstrap font-awesome genetics javascript jquery mvc-architecture mvc-framework netcore-webapi netcore3 rest-api rna-seq-data transcriptomics
Language:JavaScript 1
williamjeong2 / snakemake_RNA-seq
A repository for RNA-seq workflow
snakemake-rna-seq fpkm gene snakemake-pipeline rna-seq-data rna-seq-analysis rna-seq-pipeline
Language:R 1
Hemangini09 / RNA-seq-data-analysis-with-DESeq2
Performing RNA-seq data analysis with DESeq2 package of bioconductor
degs deseq2-analysis rna-seq-data tcga
Language:R 0
Hemangini09 / RNA-seq-data-analysis-with-edgeR-
Perform RNA-seq data analysis with edgeR package of bioconductor
bioconductor degs-screening edger rna-seq-data tcga
Language:R 0
niqolla / ieo_RNAseq_project
eproduciton of a publication regarding gene expression in different phases of lactation in humans
differential-expression genes rna rna-seq rna-seq-analysis rna-seq-data rna-sequencing rnaseq
Language:TeX 0
jacobwindsor / tmerge
Build highly accurate transcripts from long-read RNA data
rna-seq rna-seq-pipeline rnaseq rna-seq-data bioinformatics bioinformatics-tool bioinformatics-pipeline tgs sequencing-rna pacbio-iso-seq pacbioreadsconnection ont
Language:Python

rna-seq-data

seandavi / awesome-single-cell

hbctraining / DGE_workshop

federicomarini / awesome-expression-browser

nsalomonis / altanalyze

federicomarini / GeneTonic

hbctraining / Intro-to-R-with-DGE

federicomarini / pcaExplorer

uc-bd2k / GREIN

GoekeLab / proActiv

nuno-agostinho / psichomics

Transipedia / dekupl

egaffo / CirComPara

theislab / MetaMap

knowmics-lab / RNAdetector

immunogenomics / amp_phase1_ra_viewer

MG-RAST / myM5NR

sing-group / dewe

tAndreani / RNAseQTL

adeschen / SignatureHeatmap

wilkinsonlab / epigenomics_pipeline

bissessk / RNA-seq-Analysis-of-Control-and-NRDE2-depleted-Breast-Cancer-Cells

elizabethpermina / RNA-Seq-tutorial-Otago-2017

fomightez / simulated_data

keslingmj / RNASeq

kevincjnixon / BinfTools

kjohnsen / MMAPPR2data

Marcrockhat / imprintia

mchialva / RNA2M

sivkri / miRNASeq-DE-Analysis-QC

sohilsshah91 / nyhais-tcga-series-kmeans

SoniaRuiz / rytenlab-website

williamjeong2 / snakemake_RNA-seq

Hemangini09 / RNA-seq-data-analysis-with-DESeq2

Hemangini09 / RNA-seq-data-analysis-with-edgeR-

niqolla / ieo_RNAseq_project

jacobwindsor / tmerge