Alternatives and similar repositories for rna-seq-star-deseq2

Users that are interested in rna-seq-star-deseq2 are comparing it to the libraries listed below

• maxplanck-ie / snakepipes
  Customizable workflows based on snakemake and python for the analysis of NGS data
  ☆397Updated last week
• Boyle-Lab / Blacklist
  Application for making ENCODE Blacklists
  ☆321Updated 4 years ago
• rvalieris / parallel-fastq-dump
  parallel fastq-dump wrapper
  ☆298Updated 2 years ago
• snakemake-workflows / dna-seq-gatk-variant-calling
  This Snakemake pipeline implements the GATK best-practices workflow
  ☆259Updated 2 years ago
• Xinglab / rmats-turbo
  ☆275Updated 10 months ago
• comprna / SUPPA
  SUPPA: Fast quantification of splicing and differential splicing
  ☆281Updated last year
• sdparekh / zUMIs
  zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs
  ☆286Updated last year
• broadinstitute / gtex-pipeline
  GTEx & TOPMed data production and analysis pipelines
  ☆383Updated 3 weeks ago
• rpetit3 / fastq-dl
  Download FASTQ files from SRA or ENA repositories.
  ☆344Updated 3 months ago
• hbctraining / Intro-to-ChIPseq
  Intro to ChIPseq using HPC
  ☆313Updated 2 years ago
• hbctraining / Intro-to-DGE
  ☆206Updated last month
• saketkc / pysradb
  Package for fetching metadata and downloading data from SRA/ENA/GEO
  ☆340Updated last week
• nf-core / atacseq
  ATAC-seq peak-calling and QC analysis pipeline
  ☆210Updated 2 months ago
• nf-core / chipseq
  ChIP-seq peak-calling, QC and differential analysis pipeline.
  ☆225Updated 2 weeks ago
• mhammell-laboratory / TEtranscripts
  A package for including transposable elements in differential enrichment analysis of sequencing datasets.
  ☆263Updated 2 weeks ago
• hbctraining / Intro-to-rnaseq-hpc-O2
  This repository has teaching materials for a 2 and 3-day Introduction to RNA-sequencing data analysis workshop using the O2 Cluster
  ☆171Updated 4 years ago
• igordot / genomics
  A collection of scripts and notes related to genomics and bioinformatics
  ☆219Updated last week
• shenlab-sinai / ngsplot
  Quick mining and visualization of NGS data by integrating genomic databases
  ☆266Updated 2 years ago
• suhrig / arriba
  Fast and accurate gene fusion detection from RNA-Seq data
  ☆246Updated 2 weeks ago
• FelixKrueger / Bismark
  A tool to map bisulfite converted sequence reads and determine cytosine methylation states
  ☆432Updated last month
• hbctraining / DGE_workshop
  ☆396Updated 3 years ago
• nservant / HiC-Pro
  HiC-Pro: An optimized and flexible pipeline for Hi-C data processing
  ☆423Updated last year
• CGATOxford / UMI-tools
  Tools for handling Unique Molecular Identifiers in NGS data sets
  ☆522Updated 2 months ago
• ENCODE-DCC / chip-seq-pipeline2
  ENCODE ChIP-seq pipeline
  ☆272Updated last year
• ConesaLab / SQANTI3
  Tool for the Quality Control of Long-Read Defined Transcriptomes
  ☆239Updated last week
• CompEpigen / figeno
  Tool for plotting sequencing data along genomic coordinates.
  ☆319Updated 3 months ago
• loosolab / TOBIAS
  Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal
  ☆227Updated 3 weeks ago
• deweylab / RSEM
  RSEM: accurate quantification of gene and isoform expression from RNA-Seq data
  ☆453Updated last year
• thelovelab / DESeq2
  Differential expression of RNA-seq data using the Negative Binomial
  ☆415Updated last month
• Magdoll / cDNA_Cupcake
  Miscellaneous collection of Python and R scripts for processing Iso-Seq data
  ☆275Updated 2 years ago