Alternatives and similar repositories for RNA-seq

Users that are interested in RNA-seq are comparing it to the libraries listed below

• hbctraining / Intro-to-bulk-RNAseq
  Introduction to bulk RNA-seq
  ☆123Updated 6 months ago
• hbctraining / Investigating-chromatin-biology-ChIPseq
  ☆99Updated last month
• loosolab / TOBIAS
  Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal
  ☆230Updated 2 months ago
• nf-core / atacseq
  ATAC-seq peak-calling and QC analysis pipeline
  ☆213Updated last week
• hbctraining / Intro-to-DGE
  ☆209Updated 3 months ago
• erilu / bulk-rnaseq-analysis
  A complete guide for analyzing bulk RNA-seq data. Go from raw FASTQ files to mapping reads using STAR and differential gene expression an…
  ☆102Updated 5 years ago
• Xinglab / rmats-turbo
  ☆279Updated 3 weeks ago
• BioOmics / iSeq
  Download sequencing data and metadata from GSA, SRA, ENA, and DDBJ databases.
  ☆221Updated 3 weeks ago
• Boyle-Lab / Blacklist
  Application for making ENCODE Blacklists
  ☆327Updated 4 years ago
• CompEpigen / figeno
  Tool for plotting sequencing data along genomic coordinates.
  ☆321Updated 4 months ago
• rnnh / bioinfo-notebook
  🔬 Bioinformatics Notebook. Scripts for bioinformatics pipelines, with quick start guides for programs and video demonstrations.
  ☆195Updated 5 years ago
• mhammell-laboratory / TEtranscripts
  A package for including transposable elements in differential enrichment analysis of sequencing datasets.
  ☆267Updated last week
• 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
  ☆172Updated 4 years ago
• harvardinformatics / ATAC-seq
  ☆143Updated 6 years ago
• bli25 / RSEM_tutorial
  A short tutorial on how to use RSEM
  ☆139Updated 5 years ago
• ConesaLab / SQANTI3
  Tool for the Quality Control of Long-Read Defined Transcriptomes
  ☆244Updated this week
• hbctraining / Intro-to-ChIPseq
  Intro to ChIPseq using HPC
  ☆316Updated 2 years ago
• cellgeni / scRNA.seq.course
  Analysis of single cell RNA-seq data course
  ☆158Updated 3 years ago
• igordot / genomics
  A collection of scripts and notes related to genomics and bioinformatics
  ☆217Updated last week
• CebolaLab / ATAC-seq
  Analysis pipeline for ATAC-seq data
  ☆79Updated 2 years ago
• rajewsky-lab / mirdeep2
  Discovering known and novel miRNAs from small RNA sequencing data
  ☆154Updated last year
• comprna / SUPPA
  SUPPA: Fast quantification of splicing and differential splicing
  ☆284Updated last week
• nloyfer / wgbs_tools
  tools for working with Bisulfite Sequencing data while preserving reads intrinsic dependencies
  ☆172Updated last week
• evanpeikon / co_expression_network
  A DIY guide to gene co-expression network analysis
  ☆12Updated 7 months ago
• ENCODE-DCC / rna-seq-pipeline
  ☆157Updated 3 years ago
• nf-core / chipseq
  ChIP-seq peak-calling, QC and differential analysis pipeline.
  ☆226Updated last month
• rvalieris / parallel-fastq-dump
  parallel fastq-dump wrapper
  ☆299Updated 2 years ago
• NBISweden / workshop-scRNAseq
  Single cell RNA sequencing analysis course
  ☆225Updated last week
• rpetit3 / fastq-dl
  Download FASTQ files from SRA or ENA repositories.
  ☆350Updated 4 months ago
• snakemake-workflows / rna-seq-star-deseq2
  RNA-seq workflow using STAR and DESeq2
  ☆346Updated 2 months ago