pachterlab / sircel

Related projects ⓘ

Alternatives and complementary repositories for sircel

• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆41Updated 2 years ago
• shawnzhangyx / PePr
  a peak-calling and differential analysis tool for replicated ChIP-Seq data
  ☆37Updated 2 years ago
• meuleman / epilogos
  Methods for summarizing and visualizing multi-biosample functional genomic annotations
  ☆42Updated last year
• Dowell-Lab / DAStk
  Differential ATAC-seq toolkit
  ☆27Updated 11 months ago
• dan-landau / IronThrone-GoT
  processes GoT amplicon data and generates a table of metrics
  ☆26Updated 2 years ago
• kundajelab / idr
  IDR
  ☆30Updated last year
• Danko-Lab / tutorials
  Tutorials covering various topics in genomic data analysis.
  ☆16Updated 5 years ago
• Wedge-lab / dpclust
  Dirichlet Process based methods for subclonal reconstruction of tumours
  ☆29Updated last month
• dphansti / mango
  chia pet analysis software
  ☆25Updated 5 years ago
• rajanil / msCentipede
  A hierarchical multiscale model for inferring transcription factor binding from chromatin accessibility data.
  ☆25Updated 8 years ago
• hms-dbmi / spp
  SPP - R package for analysis of ChIP-seq and other functional sequencing data
  ☆39Updated 3 years ago
• lamortenera / epicseg
  Chromatin segmentation in R
  ☆19Updated 6 years ago
• ParkerLab / atactk
  A toolkit for working with ATAC-seq data.
  ☆24Updated 5 months ago
• rcavalcante / annotatr
  Package Homepage: http://bioconductor.org/packages/devel/bioc/html/annotatr.html Bug Reports: https://support.bioconductor.org/p/new/post…
  ☆26Updated 3 months ago
• govinda-kamath / clustering_on_transcript_compatibility_counts
  Clustering cells from single cell RNA seq assays
  ☆46Updated 6 years ago
• nskvir / RepEnrich
  RepEnrich is a method to estimate repetitive element enrichment using high-throughput sequencing data.
  ☆26Updated 2 years ago
• Danko-Lab / rtfbs_db
  Parse TF motifs from public databases, read into R, and scan using 'rtfbs'.
  ☆22Updated 5 years ago
• vivekbhr / Subread_to_DEXSeq
  Scripts to import your FeatureCounts output into DEXSeq
  ☆30Updated 6 years ago
• GreenleafLab / NucleoATACR
  R package for reading in & working with NucleoATAC outputs
  ☆26Updated 6 years ago
• slowkow / CENTIPEDE.tutorial
  How to use CENTIPEDE to determine if a transcription factor is bound.
  ☆25Updated 6 years ago
• pachterlab / kma
  Keep Me Around: Intron Retention Detection
  ☆29Updated 5 years ago
• mandricigor / imrep
  ImReP is a computational method for rapid and accurate profiling of the adaptive immune repertoire from regular RNA-Seq data.
  ☆28Updated 5 years ago
• CshlSiepelLab / LINSIGHT
  ☆24Updated 5 months ago
• COMBINE-lab / SalmonTools
  Useful tools for working with Salmon output
  ☆35Updated 4 years ago
• anbrooks / juncBASE
  Junction Based Analysis of Splicing Events for RNA-Seq
  ☆30Updated 6 years ago
• brwnj / umitools
  Tools to handle reads sequenced with unique molecular identifiers (UMIs).
  ☆30Updated 7 years ago
• gagneurlab / OUTRIDER
  OUTRIDER: OUTlier in RNA-seq fInDER is an R-based framework to find aberrantly expressed genes in RNA-seq data
  ☆49Updated 3 months ago
• daler / chromhmm-tools
  Helpers for working with ChromHMM (http://compbio.mit.edu/ChromHMM/)
  ☆16Updated 6 years ago
• pachterlab / scRNA-Seq-TCC-prep
  Preprocessing of single-cell RNA-Seq (deprecated)
  ☆62Updated 5 years ago
• heathsc / gemBS
  gemBS is a bioinformatics pipeline designed for high throughput analysis of DNA methylation from Whole Genome Bisulfite Sequencing data (…
  ☆32Updated 2 years ago