Alternatives and similar repositories for scrnaseq

Users that are interested in scrnaseq are comparing it to the libraries listed below

• hbctraining / Intro-to-ChIPseq
  Intro to ChIPseq using HPC
  ☆319Updated 3 years ago
• nf-core / atacseq
  ATAC-seq peak-calling and QC analysis pipeline
  ☆222Updated 2 months ago
• nf-core / chipseq
  ChIP-seq peak-calling, QC and differential analysis pipeline.
  ☆230Updated 2 months ago
• ENCODE-DCC / chip-seq-pipeline2
  ENCODE ChIP-seq pipeline
  ☆278Updated last year
• Boyle-Lab / Blacklist
  Application for making ENCODE Blacklists
  ☆332Updated 4 years ago
• Xinglab / rmats-turbo
  ☆290Updated 3 months ago
• ENCODE-DCC / atac-seq-pipeline
  ENCODE ATAC-seq pipeline
  ☆446Updated last year
• liulab-dfci / TRUST4
  TCR and BCR assembly from RNA-seq data
  ☆338Updated 3 weeks ago
• 10XGenomics / cellranger
  10x Genomics Single Cell Analysis
  ☆444Updated 2 months ago
• maxplanck-ie / snakepipes
  Customizable workflows based on snakemake and python for the analysis of NGS data
  ☆397Updated 3 weeks ago
• Teichlab / scg_lib_structs
  Collections of library structure and sequence of popular single cell genomic methods
  ☆492Updated 8 months ago
• sdparekh / zUMIs
  zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs
  ☆290Updated last year
• snakemake-workflows / rna-seq-star-deseq2
  RNA-seq workflow using STAR and DESeq2
  ☆351Updated last month
• CebolaLab / RNA-seq
  Step-by-step analysis pipeline for RNA-seq data
  ☆163Updated 2 years ago
• loosolab / TOBIAS
  Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal
  ☆237Updated 2 months ago
• comprna / SUPPA
  SUPPA: Fast quantification of splicing and differential splicing
  ☆294Updated 3 months ago
• broadinstitute / gtex-pipeline
  GTEx & TOPMed data production and analysis pipelines
  ☆394Updated 4 months ago
• hbctraining / Intro-to-DGE
  ☆211Updated 5 months ago
• rvalieris / parallel-fastq-dump
  parallel fastq-dump wrapper
  ☆303Updated 2 years ago
• hbctraining / Investigating-chromatin-biology-ChIPseq
  ☆101Updated 4 months ago
• mhammell-laboratory / TEtranscripts
  A package for including transposable elements in differential enrichment analysis of sequencing datasets.
  ☆276Updated 3 months ago
• broadinstitute / ABC-Enhancer-Gene-Prediction
  Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)
  ☆246Updated last week
• cellgeni / scRNA.seq.course
  Analysis of single cell RNA-seq data course
  ☆163Updated 3 years ago
• hbctraining / Intro-to-bulk-RNAseq
  Introduction to bulk RNA-seq
  ☆136Updated 9 months ago
• scRNA-tools / scRNA-tools
  Table of software for the analysis of single-cell RNA-seq data.
  ☆338Updated this week
• CGATOxford / UMI-tools
  Tools for handling Unique Molecular Identifiers in NGS data sets
  ☆536Updated last week
• shenlab-sinai / ngsplot
  Quick mining and visualization of NGS data by integrating genomic databases
  ☆268Updated 2 years ago
• milaboratory / mixcr
  MiXCR is an ultimate software platform for analysis of Next-Generation Sequencing (NGS) data for immune profiling.
  ☆382Updated this week
• nservant / HiC-Pro
  HiC-Pro: An optimized and flexible pipeline for Hi-C data processing
  ☆430Updated last year
• FelixKrueger / Bismark
  A tool to map bisulfite converted sequence reads and determine cytosine methylation states
  ☆442Updated 6 months ago