Alternatives and similar repositories for circtools

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

• gtrichard / deepStats
  deepStats: a stastitical toolbox for deeptools and genomic signals
  ☆34Updated 3 years ago
• YeoLab / outrigger
  Create a *de novo* alternative splicing database, validate splicing events, and quantify percent spliced-in (Psi) from RNA seq data
  ☆65Updated 5 years ago
• TRON-Bioinformatics / EasyFuse
  EasyFuse is a pipeline for accurate fusion gene detection from RNA-seq data.
  ☆57Updated 5 months ago
• ding-lab / PanCanAtlasGermline
  ☆44Updated 6 years ago
• YangLab / CLEAR
  direct comparison of circular and linear RNA expression
  ☆23Updated 4 years ago
• ratschlab / pancanatlas_code_public
  Public repository containing research code for the TCGA PanCanAtlas Splicing project
  ☆41Updated 4 years ago
• Xinglab / lr2rmats
  Long read to rMATS
  ☆31Updated 2 years ago
• cfce / chilin
  ChIP-seq DC and QC Pipeline
  ☆34Updated 4 years ago
• parklab / SigMA
  Mutational signature analysis for low statistics SNV data
  ☆63Updated 9 months ago
• broadinstitute / RNA_MUTECT_1.0-1
  ☆38Updated 5 years ago
• xryanglab / xtail
  Genome-wide assessment of differential translations with ribosome profiling data
  ☆19Updated last week
• ambj / MuPeXI
  MuPeXI: the mutant peptide extractor and informer, a tool for predicting neo-epitopes from tumor sequencing data.
  ☆50Updated 5 years ago
• aeeckhou / shallowHRD
  This method uses shallow Whole Genome Sequencing (sWGS) and the segmentation of a genomic profile to assess the Homologous Recombination …
  ☆34Updated 10 months ago
• aryeelab / hichipper
  A preprocessing and QC pipeline for HiChIP data
  ☆38Updated 2 years ago
• nerettilab / RepEnrich2
  RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.
  ☆39Updated 3 years ago
• ylab-hi / ScanNeo
  A pipeline for identifying indel derived neoantigens using RNA-Seq data
  ☆30Updated 2 years ago
• a2iEditing / RNAEditingIndexer
  A tool for the calculation of RNA-editing index for RNA seq data
  ☆43Updated last year
• jsh58 / DMRfinder
  Identifying differentially methylated regions from MethylC-seq (bisulfite-sequencing) data
  ☆27Updated last year
• williamritchie / IRFinder
  Detecting intron retention from RNA-Seq experiments
  ☆55Updated 10 months ago
• YeoLab / singlecell_pnm
  Code and figures accompanying the paper, "Single-cell alternative splicing analysis with Expedition reveals splicing dynamics during neu…
  ☆20Updated 7 years ago
• davetang / defining_genomic_regions
  Define regions in the genome
  ☆30Updated 3 years ago
• getzlab / MutSig2CV
  MutSig2CV from Lawrence et al. 2014
  ☆31Updated 4 years ago
• Xinglab / CLAM
  CLIP-seq Analysis of Multi-mapped reads
  ☆30Updated 3 years ago
• mdozmorov / RNA-seq_notes
  A continually expanding collection of RNA-seq tools
  ☆49Updated 7 months ago
• FunGeST / Palimpsest
  An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.
  ☆71Updated 11 months ago
• nuno-agostinho / psichomics
  Interactive R package to quantify, analyse and visualise alternative splicing
  ☆37Updated this week
• biosinodx / SCcaller
  Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data
  ☆34Updated 5 months ago
• markowetzlab / Drews2022_CIN_Compendium
  Main repository for Drews et al. (Nature, 2022)
  ☆40Updated last year
• LosicLab / starchip
  Detection of Circular RNA and Fusions from RNA-Seq
  ☆32Updated 6 years ago
• kundajelab / phantompeakqualtools
  This package computes informative enrichment and quality measures for ChIP-seq/DNase-seq/FAIRE-seq/MNase-seq data. It can also be used to…
  ☆59Updated 4 years ago