rnaseq-pipeline
There are 31 repositories under rnaseq-pipeline topic.
amarinderthind/RNA-seq-tutorial-for-gene-differential-expression-analysis
This RNAseq data analysis tutorial is created for educational purpose
Novartis/pisces
PISCES is a pipeline for rapid transcript quantitation, genetic fingerprinting, and quality control assessment of RNAseq libraries using Salmon.
sunyumail93/PipeRNAseq
A comprehensive pipeline for RNAseq data analysis
eandresleon/miARma-seq
miARma-seq: a comprehensive tool for miRNA, mRNA and circRNA analysis
ajitjohnson/arseq
An Automated RNASeq Analysis Pipeline (Differential expression to gene enrichment)
umccr/RNAsum
Pipeline for generating RNAseq-based cancer patient reports
CGAT-Group/DICAST
Docker Integrated Comparison of Alternative Splicing (AS) Tools. Benchmarking AS tools and genomic alignment tools.
czheluo/lncRNA-pipeline
lncRNA analysis pipeline
LieberInstitute/SPEAQeasyWorkshop2020
EuroBioc2020 SPEAQeasy workshop https://eurobioc2020.bioconductor.org by Nick Eagles and Josh Stolz. For more information about SPEAQeasy check http://research.libd.org/SPEAQeasy/. For an example on how to use this RNA-seq processing pipeline and analyze the output files check http://research.libd.org/SPEAQeasy-example/.
mppl1/RNAseq_preprocessing
These are tutorials on a subset of tools available for processing raw RNAseq data. This if for HISAT2_SAMtools_Stringtie_gffcompare_ballgown pipeline or HISAT2_SAMtools_Stringtie_PrepDEanalysis.py_DESeq2 pipeline
kicheolkim/RNAseq_FullTx
RNA-Seq data analysis: whole transcriptome, stranded, dUTP method
jvandinter/container_pilot
pilot pipeline that includes tool containerization
LBGC-CFB/SOSTAR
iSofOrmS annoTAtoR pipeline
milescsmith/rnaseq_pipeline
Snakemake+singularity RNAseq processing pipeline
nbay13/toilkit
A python package for working with inputs to and outputs from the toil-rnaseq pipeline
PavlidisLab/rnaseq-variant-pipeline
Pipeline for calling and analyzing variants from RNA-Seq data
sevdarafatov/RNASeq_snakemake
These snakefiles are prepared for the snakemake pipeline for the RNASeq analysis
tdayris-perso/rna-count-salmon
Snakemake workflow for Salmon quantification and FastQC quality controls
WestGermanGenomeCenter/circrna_detection
circs_snake : a snakemake-based circRNA detection workflow
Alruta/Kallisto-DESeq2_Pipeline
A script to analyze with DESeq2 data from Kallisto. You maybe are interested only in DESeq2 part and its analisis and representation :)
glyspy/RNA-seq-analysis
RNA-seq replication analysis.
kiranfranklin999/Nextflow_tutorials
Introduction to Bioinformatics workflows with Nextflow
michalbukowski/rnaseq-pipeline-1
Simple Snakemake RNA-Seq pipeline
MJBioInfo/SnakemakeWorkflow
In this repository : i have created RNAseq pipeline using snakemake rules
sup1496/RNASeq-Analysis
A basic pipeline for the analysis of RNASeq data. Entirely done in Bash and R script.
tdayris/fair_rnaseq_salmon_quant
Snakemake workflow designed to perform RNASeq transcrpotime expression estimation with Salmon
uclanelsonlab/nl-rna-seq_wf
RNA-seq for rare diseases pipeline using nextflow
vallenderlab/rnaseq-tuxedo-suite
An RNASeq snakemake workflow using the Tuxedo suite.
czheluo/circRNA
Predict circRNA pipeline
kfarleigh/ResearchersGuideToPopulationGenomics
A book that discusses topics and contains tutorials relevant to population genomics
PatrickBuerger/RNAseq_Pipeline
R pipeline to process RNA seq data using Limma-Voom.