Alternatives and similar repositories for chisel

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

• raphael-group / decifer
  DeCiFer is an algorithm that simultaneously selects mutation multiplicities and clusters SNVs by their corresponding descendant cell frac…
  ☆22Updated last year
• cbg-ethz / SCICoNE
  Single-cell copy number calling and event history reconstruction.
  ☆27Updated last year
• natsuhiko / rasqual
  Robust Allele Specific Quantification and quality controL
  ☆40Updated 4 years ago
• broadinstitute / RNA_MUTECT_1.0-1
  ☆38Updated 5 years ago
• dan-landau / IronThrone-GoT
  processes GoT amplicon data and generates a table of metrics
  ☆32Updated 3 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 2 months ago
• gerstung-lab / MutationTimeR
  An R package to time somatic mutations
  ☆65Updated 5 years ago
• Wedge-lab / dpclust
  Dirichlet Process based methods for subclonal reconstruction of tumours
  ☆31Updated 9 months ago
• kundajelab / idr
  IDR
  ☆31Updated 2 years ago
• kundajelab / 3DChromatin_ReplicateQC
  Software to compute reproducibility and quality scores for Hi-C data
  ☆50Updated 6 years ago
• parklab / HiNT
  HiC for copy Number variation and Translocation detection
  ☆40Updated 4 years ago
• shahcompbio / hmmcopy_utils
  Tools for extracting read counts and gc and mappability statistics in preparation for running HMMCopy.
  ☆42Updated 4 years ago
• parklab / ShatterSeek
  ☆72Updated 2 years ago
• nerettilab / RepEnrich2
  RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.
  ☆41Updated 3 years ago
• HorvathLab / NGS
  Next-Gen Sequencing tools from the Horvath Lab
  ☆44Updated 3 months ago
• broadinstitute / PhylogicNDT
  ☆82Updated 8 months ago
• kundajelab / ataqc
  ☆17Updated 6 years ago
• UMCUGenetics / CHORD
  An R package for predicting HR deficiency from mutation contexts
  ☆30Updated 10 months ago
• nloyfer / meth_atlas
  ☆53Updated 3 years ago
• andreyshabalin / MatrixEQTL
  Matrix eQTL: Ultra fast eQTL analysis via large matrix operations
  ☆89Updated 2 years ago
• eQTL-Catalogue / qtlmap
  Portable eQTL analysis and statistical fine mapping workflow used by the eQTL Catalogue
  ☆57Updated 2 months ago
• mskilab-org / dryclean
  Irons out wrinkles in noisy coverage data using robust PCA
  ☆15Updated 7 months ago
• mccoy-lab / MAGE
  Analysis of gene expression and splicing diversity in a subset of samples from the 1000 Genomes Project, including eQTL and sQTL discover…
  ☆42Updated last year
• dozmorovlab / excluderanges
  Genomic coordinates of problematic genomic regions as GRanges
  ☆49Updated 2 weeks ago
• mskcc / mutation-signatures
  Create mutation signatures from MAF's, and decompose them into Stratton signatures
  ☆60Updated 6 years ago
• seasoncloud / Alleloscope
  Alleloscope is a method for allele-specific copy number estimation that can be applied to single cell DNA and ATAC sequencing data (separ…
  ☆31Updated 2 years ago
• biosinodx / SCcaller
  Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data
  ☆35Updated last year
• Wedge-lab / battenberg
  Battenberg R package for subclonal copynumber estimation
  ☆93Updated 2 weeks ago
• LuyiTian / FLAMES
  Full-length transcriptome splicing and mutation analysis
  ☆85Updated last year
• lanagarmire / SSrGE
  ☆34Updated 6 years ago