rna-seq-pipeline
There are 122 repositories under rna-seq-pipeline topic.
GuyTeichman/RNAlysis
Analyze your RNA sequencing data without writing a single line of code
urmi-21/pyrpipe
Reproducible bioinformatics pipelines in python. Import any Unix tool/command in python.
uc-bd2k/GREIN
GREIN : GEO RNA-seq Experiments Interactive Navigator
jumphone/SPRINT
SNP-free RNA editing Identification Toolkit
gaolabtools/scNanoGPS
Single cell Nanopore sequencing data for Genotype and Phenotype
Taiji-pipeline/Taiji
All-in-one analysis pipeline
NCBI-Hackathons/SPeW
Automatic Packaging and Distribution of Bioinformatics Pipelines
PalMuc/TransPi
TransPi – a comprehensive TRanscriptome ANalysiS PIpeline for de novo transcriptome assembly
giuliospinozzi/arpir
Automatic RNA-Seq Pipelines with Interactive Report
uc-bd2k/GREP2
GEO RNA-seq Experiments Processing Pipeline
HKU-BAL/Clair3-RNA
Clair3-RNA - a long-read small variant caller for RNA sequencing data
egaffo/CirComPara
:microscope: A multi-method comparative bioinformatics pipeline to detect and study circRNAs from RNA-seq data
eonurk/RNA-seq-differential-analyses-guideline
A quick recap of widely used differential analyses methods in R for RNA-seq experiments
BleekerLab/snakemake_rnaseq
A Snakemake pipeline to go from fastq mRNA sequencing files to raw and normalised counts (usable for downstream EDA and differential analysis)
apredeus/multi-bacpipe
A convenient pipeline for processing of multi-strain bacterial RNA-Seq experiments
cellgeni/rnaseq
Fast RNAseq pipeline
zqfang/snakeflow
bioinfo workflow based on snakemake
schosio/CHOLAR
Automated RNA-seq pipeline for lncRNA indentification
hanielcedraz/BAQCOM
Quality Control, Mapping and Reads Count for RNA-Seq Analysis
czheluo/Teach-Bioinformatics-R-dataviz
Materials for "Teaching Bioinformatics and R for dataviz course" June-August 2019 in Majorbio
Lexogen-Tools/quantseqpool_analysis
Standard analysis routine for samples that were generated with Lexogen's QuantSeq pool library preparation kit.
vondoRishi/4-RNA-seq
A slurm based pipeline for RNA-seq analysis to execute on linux clusters. Feel free to connect to visualize your RNA-seq data on the clouds
zavolanlab/PAQR2
Updated version of PAQR, which was previously available in the PAQR_KAPAC joint repository.
DKFZ-ODCF/RNAseqWorkflow
Roddy RNA-seq Workflow Plugin
GrosseLab/VipeR_HIF1alpha
Viper is a Snakemake workflow, aimed at performing the RNA-seq workflow of the paper 'Causes and consequences of a glutamine induced normoxic HIF1 activity for the tumor metabolism', Kappler et al. (2019) in a reproducible and automated manner
LieberInstitute/SPEAQeasy
SPEAQeasy: portable LIBD RNA-seq pipeline using Nextflow. Check http://research.libd.org/SPEAQeasy-example/ for an example on how to use this pipeline and analyze the resulting output files.
EmoryIntegratedComputationalCore/Methods
Some of the analytical processes and tools we use to provide rigorous and actionable results to our clients.
mhjiang97/RNASeqFlow
A small python tool for RNA-seq workflows
yuragal/fradians-rnaseq
De nove assembly and annotation of Fragilaria radians transcriptome
galantelab/fredy
Tool to identify chimeric events from RNA-Seq data
pentalpha/r-peridot
Software for intuitively doing Differential Gene Expression (DGE) analysis on Windows and GNU\Linux, based on R packages.
RuzhangZhao/mixhvg
The package mixhvg uses mixture of highly variable gene selection methods to improve gene selection.
vivekruhela/miRPipe
miRPipe: Open source RNA-Seq bioinformatics analysis docker for identification of miRNAs and piRNAs
niekwit/rna-seq-star-tetranscripts
Snakemake workflow for transposable element RNA-Seq using TEtranscripts
pengkenlim/LSTrAP-denovo
LSTrAP-denovo is an easy-to-use pipeline to assemble and annotate transcripts for species without genome / genomic annotations using publicly available RNA-seq data.