Alternatives and similar repositories for workflows

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

• 3UTR / DaPars2
  Dynamics analysis of Alternative PolyAdenylation from RNA-seq
  ☆61Updated last year
• shizhuoxing / scISA-Tools
  single-cell-Isoform-Sequencing-Analysis-Tools: New and powerful tools brings single-cell RNA sequencing to the Isoform level and single m…
  ☆25Updated 11 months ago
• scottzijiezhang / m6A-seq_analysis_workflow
  A pipeline to process m6A-seq data and down stream analysis.
  ☆45Updated 4 years ago
• yezhengSTAT / CUTTag_tutorial
  Tutorial Website
  ☆59Updated 4 years ago
• ElkonLab / scAPA
  This is a package and a shell script for alternative polyadenylation (APA) analysis of 3' tag single-cell RNA-seq data.
  ☆21Updated 3 years ago
• olarerin / metaPlotR
  A Perl/R pipeline for plotting metagenes
  ☆37Updated 3 years ago
• ay-lab / ATACProc
  ATAC-seq processing pipeline
  ☆33Updated 3 years ago
• marvin-jens / find_circ
  tools to find circRNAs in RNA-seq data
  ☆43Updated 7 years ago
• gerstung-lab / MutationTimeR
  An R package to time somatic mutations
  ☆62Updated 4 years ago
• ENCODE-DCC / dna-me-pipeline
  DCC/DAC methylation pipeline source
  ☆56Updated 4 years ago
• shunliubio / easym6A
  Process m6A/MeRIP-seq data in a single or batch job mode
  ☆20Updated 5 years ago
• AmpliconSuite / AmpliconSuite-pipeline
  A quickstart tool for AmpliconArchitect. Performs all preliminary steps (alignment, CNV calling, seed interval detection) required prior …
  ☆67Updated 2 weeks ago
• markowetzlab / Drews2022_CIN_Compendium
  Main repository for Drews et al. (Nature, 2022)
  ☆42Updated last year
• stjude / ROSE
  ROSE: RANK ORDERING OF SUPER-ENHANCERS
  ☆50Updated 11 months ago
• databio / pepatac
  A modular, containerized pipeline for ATAC-seq data processing
  ☆58Updated last month
• Xinglab / CLAM
  CLIP-seq Analysis of Multi-mapped reads
  ☆31Updated 3 years ago
• zhqingit / giremi
  GIREMI is a method that can identify RNA editing sites using one RNA-seq data set without requiring genome sequence data.
  ☆44Updated 8 years ago
• tushiqi / MAnorm2
  MAnorm2 for Normalizing and Comparing ChIP-seq Samples
  ☆33Updated 2 years ago
• broadinstitute / PhylogicNDT
  ☆74Updated 3 months ago
• nerettilab / RepEnrich2
  RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.
  ☆39Updated 3 years ago
• AAlhendi1707 / countToFPKM
  Convert Counts to Fragments per Kilobase of Transcript per Million (FPKM)
  ☆62Updated 4 years ago
• xuzhougeng / RNA-seq-downstream-analysis
  Arabidopsis RNA_-seq downstream analysis shiny app
  ☆30Updated 5 years ago
• cxzhu / Paired-Tag
  Analysis of Paired-Tag datasets
  ☆42Updated last year
• ratschlab / pancanatlas_code_public
  Public repository containing research code for the TCGA PanCanAtlas Splicing project
  ☆41Updated 4 years ago
• BioinfoUNIBA / REDItools2
  ☆58Updated 3 years ago
• ShixiangWang / DoAbsolute
  Automate Absolute Copy Number Calling using 'ABSOLUTE' package
  ☆39Updated last year
• mcgilldinglab / MATES
  A Deep Learning-Based Model for Quantifying Transposable Elements in Single-Cell Sequencing Data
  ☆28Updated 3 months ago
• bvaldebenitom / SoloTE
  ☆32Updated last year
• Xinglab / SEASTAR
  SEASTAR - Systematic Evaluation of Alternative transcription STArt site in RNA
  ☆13Updated 7 years ago
• GuipengLi / ChIA-PET2
  a versatile and flexible pipeline for analysing different variants of ChIA-PET data
  ☆34Updated 7 months ago