Alternatives and similar repositories for dropSeqPipe

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

• ENCODE-DCC / chip-seq-pipeline
  ENCODE Uniform processing pipeline for ChIP-seq
  ☆123Updated 5 years ago
• hms-dbmi / scde
  R package for analyzing single-cell RNA-seq data
  ☆175Updated last year
• YeoLab / single-cell-bioinformatics
  Course material in notebook format for learning about single cell bioinformatics methods
  ☆101Updated 9 years ago
• tallulandrews / scRNASeqPipeline
  ☆118Updated 6 years ago
• kundajelab / atac_dnase_pipelines
  ATAC-seq and DNase-seq processing pipeline
  ☆166Updated 3 years ago
• snakemake-workflows / single-cell-rna-seq
  A single cell RNA-seq workflow, including highly variable gene analysis, cell type assignment and differential expression analysis.
  ☆102Updated 2 years ago
• TrinityCTAT / Trinity_CTAT
  ☆117Updated last year
• bli25 / RSEM_tutorial
  A short tutorial on how to use RSEM
  ☆136Updated 5 years ago
• davidaknowles / leafcutter
  Annotation-free quantification of RNA splicing. Yang I. Li, David A. Knowles, Jack Humphrey, Alvaro N. Barbeira, Scott P. Dickinson, Hae …
  ☆219Updated last year
• jsh58 / Genrich
  Detecting sites of genomic enrichment
  ☆192Updated 2 years ago
• csoneson / ARMOR
  Light-weight Snakemake workflow for preprocessing and statistical analysis of RNA-seq data
  ☆165Updated 6 months ago
• shenlab-sinai / ngsplot
  Quick mining and visualization of NGS data by integrating genomic databases
  ☆265Updated 2 years ago
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆178Updated 11 months ago
• VanLoo-lab / ascat
  ASCAT R package
  ☆181Updated 3 months ago
• broadinstitute / Drop-seq
  Java tools for analyzing Drop-seq data
  ☆128Updated this week
• harvardinformatics / ATAC-seq
  ☆138Updated 6 years ago
• crazyhottommy / pyflow-ChIPseq
  a snakemake pipeline to process ChIP-seq files from GEO or in-house
  ☆108Updated 5 years ago
• FredHutch / SEACR
  SEACR: Sparse Enrichment Analysis for CUT&RUN
  ☆110Updated 2 years ago
• dviraran / xCell
  Cell types enrichment analysis
  ☆198Updated last year
• crazyhottommy / pyflow-ATACseq
  ATAC-seq snakemake pipeline
  ☆89Updated 5 years ago
• jdblischak / singleCellSeq
  Batch effects and the effective design of single-cell gene expression studies
  ☆102Updated 5 years ago
• czbiohub-sf / tabula-muris
  Code and annotations for the Tabula Muris single-cell transcriptomic dataset.
  ☆192Updated 2 years ago
• thelovelab / tximport
  Transcript quantification import for modular pipelines
  ☆138Updated last year
• bvieth / powsimR
  Power analysis is essential to optimize the design of RNA-seq experiments and to assess and compare the power to detect differentially ex…
  ☆106Updated last year
• mskcc / RNAseqDB
  ☆141Updated 7 years ago
• chrisamiller / fishplot
  Create timecourse "fish plots" that show changes in the clonal architecture of tumors
  ☆169Updated last year
• ENCODE-DCC / long-rna-seq-pipeline
  STAR based ENCODE Long RNA-Seq processing pipeline
  ☆94Updated 4 years ago
• loosolab / TOBIAS
  Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal
  ☆216Updated this week
• compbiomed / singleCellTK
  Interactively analyze single cell genomic data
  ☆182Updated last month
• PMBio / scLVM
  scLVM is a modelling framework for single-cell RNA-seq data that can be used to dissect the observed heterogeneity into different sources…
  ☆106Updated 2 years ago