Alternatives and similar repositories for cgat-core

Users that are interested in cgat-core are comparing it to the libraries listed below

• gtrichard / deepStats
  deepStats: a stastitical toolbox for deeptools and genomic signals
  ☆35Updated 4 years ago
• mandricigor / imrep
  ImReP is a computational method for rapid and accurate profiling of the adaptive immune repertoire from regular RNA-Seq data.
  ☆29Updated 6 years ago
• pachterlab / sircel
  Identify cell barcodes from single-cell genomics sequencing experiments
  ☆43Updated 3 years ago
• rajanil / msCentipede
  A hierarchical multiscale model for inferring transcription factor binding from chromatin accessibility data.
  ☆26Updated 9 years ago
• Dowell-Lab / DAStk
  Differential ATAC-seq toolkit
  ☆27Updated last year
• czbiohub-sf / cerebra
  A tool for fast and accurate summarizing of variant calling format (VCF) files
  ☆61Updated 2 years ago
• Simon-Coetzee / motifBreakR
  A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription Factor Binding Sites.
  ☆29Updated last year
• mahmoudibrahim / JAMM
  JAMM Peak Finder for Sequencing Datasets
  ☆29Updated 5 years ago
• smangul1 / rop
  The Read Origin Protocol (ROP) is a computational protocol that aims to discover the source of all reads, including those originating fro…
  ☆36Updated last year
• yuchaojiang / SCALE
  Allele-Specific Expression by Single-Cell RNA Sequencing
  ☆29Updated 5 years ago
• loosolab / UROPA
  Universal RObust Peak Annotator
  ☆16Updated last year
• lamortenera / epicseg
  Chromatin segmentation in R
  ☆19Updated 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
  ☆54Updated this week
• shendurelab / MPRAflow
  A portable, flexible, parallelized tool for complete processing of massively parallel reporter assay data
  ☆34Updated 9 months ago
• simonvh / fluff
  Fluff is a Python package that contains several scripts to produce pretty, publication-quality figures for next-generation sequencing exp…
  ☆71Updated last year
• kundajelab / genomedisco
  Software for comparing contact maps from HiC, CaptureC and other 3D genome data.
  ☆27Updated 7 years ago
• meuleman / epilogos
  Methods for summarizing and visualizing multi-biosample functional genomic annotations
  ☆46Updated 7 months ago
• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆42Updated 3 years ago
• cfce / chilin
  ChIP-seq DC and QC Pipeline
  ☆36Updated 4 years ago
• pachterlab / scRNA-Seq-TCC-prep
  Preprocessing of single-cell RNA-Seq (deprecated)
  ☆62Updated 6 years ago
• rhondabacher / SCnorm
  Normalization for single cell RNA-seq data
  ☆49Updated 4 months ago
• Danko-Lab / rtfbs_db
  Parse TF motifs from public databases, read into R, and scan using 'rtfbs'.
  ☆23Updated 6 years ago
• hms-dbmi / spp
  SPP - R package for analysis of ChIP-seq and other functional sequencing data
  ☆43Updated 4 years ago
• jernst98 / ChromImpute
  ☆16Updated last year
• COMBINE-lab / wasabi
  Prepare Sailfish and Salmon output for downstream analysis
  ☆42Updated 6 years ago
• nellore / intropolis
  Exon-exon splice junctions across SRA
  ☆42Updated 4 years ago
• morrislab / pairtree
  Pairtree is a method for reconstructing cancer evolutionary history in individual patients, and analyzing intratumor genetic heterogeneit…
  ☆38Updated last year
• satijalab / scChromHMM
  🧬 🦀 A fast and efficient tool to perform a genome wide Single cell Chromatin State Analysis using multimodal histone modification data.…
  ☆29Updated 4 years ago
• biocore-ntnu / epic
  (DEPRECATED) epic: diffuse domain ChIP-Seq caller based on SICER
  ☆31Updated 6 years ago
• jessemzhang / dendrosplit
  ☆24Updated 7 years ago