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rnaseq-pipeline

Here are 13 public repositories matching this topic...

Novartis / pisces

PISCES is a pipeline for rapid transcript quantitation, genetic fingerprinting, and quality control assessment of RNAseq libraries using Salmon.

bioinformatics bioinformatics-pipeline rnaseq transcriptomics salmon rnaseq-pipeline

Updated May 28, 2024
Python

CGAT-Group / DICAST

Docker Integrated Comparison of Alternative Splicing (AS) Tools. Benchmarking AS tools and genomic alignment tools.

docker snakemake transcriptomics rnaseq-pipeline rnaseq-analysis

Updated Jan 5, 2023
Python

LBGC-CFB / SOSTAR

iSofOrmS annoTAtoR pipeline Aucouturier, C., Soirat, N., Castéra, L. et al. Fine mapping of RNA isoform diversity using an innovative targeted long-read RNA sequencing protocol with novel dedicated bioinformatics pipeline. BMC Genomics 25, 909 (2024).

longread rnaseq-pipeline

Updated Jan 19, 2025
Python

WestGermanGenomeCenter / circrna_detection

circs_snake : a snakemake-based circRNA detection workflow

rna-seq rna circular rna-seq-pipeline rnaseq-pipeline

Updated Feb 1, 2022
Python

nbay13 / toilkit

A python package for working with inputs to and outputs from the toil-rnaseq pipeline

bioinformatics rnaseq transcriptomics sequence-alignment rsem fastqc rnaseq-pipeline

Updated Feb 1, 2025
Python

tdayris-perso / rna-count-salmon

Snakemake workflow for Salmon quantification and FastQC quality controls

bioinformatics-pipeline multiqc salmon snakemake-workflows reproducible-workflows fastqc rnaseq-pipeline

Updated Mar 20, 2021
Python

milescsmith / rnaseq_pipeline

Snakemake+singularity RNAseq processing pipeline

bioinformatics rna-seq snakemake pipeline nextflow bioinformatics-pipeline rnaseq rnaseq-pipeline

Updated Dec 15, 2023
Python

PavlidisLab / rnaseq-variant-pipeline

Pipeline for calling and analyzing variants from RNA-Seq data

picard rnaseq star luigi-workflows variant-calling gatk4 rnaseq-pipeline

Updated Nov 7, 2022
Python

sevdarafatov / RNASeq_snakemake

These snakefiles are prepared for the snakemake pipeline for the RNASeq analysis

python snakemake rnaseq-pipeline

Updated Oct 31, 2022
Python

tdayris / fair_rnaseq_salmon_quant

Snakemake workflow designed to perform RNASeq transcrpotime expression estimation with Salmon

snakemake reproducible-science fair snakemake-workflow rnaseq-pipeline

Updated Feb 5, 2025
Python

MJBioInfo / SnakemakeWorkflow

In this repository : i have created RNAseq pipeline using snakemake rules

snakemake-workflow rnaseq-pipeline

Updated Jul 14, 2023
Python

michalbukowski / rnaseq-pipeline-1

Simple Snakemake RNA-Seq pipeline

python rna-seq snakemake r pandas python3 bioconductor salmon miniconda dge miniconda3 dge-analysis salmon-deseq2 rnaseq-pipeline snakemake-pipeline rnaseq-analysis snakemake-rna-seq

Updated Mar 21, 2023
Python

vallenderlab / rnaseq-tuxedo-suite

An RNASeq snakemake workflow using the Tuxedo suite.

snakemake rna-seq-snakemake rna-seq-pipeline snakemake-workflow rnaseq-tuxedo rnaseq-pipeline

Updated Aug 19, 2019
Python

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