Alternatives and similar repositories for ichorCNA

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

• VanLoo-lab / ascat
  ASCAT R package
  ☆194Updated 3 months ago
• AlexandrovLab / SigProfilerExtractor
  SigProfilerExtractor allows de novo extraction of mutational signatures from data generated in a matrix format. The tool identifies the n…
  ☆172Updated last week
• davidaknowles / leafcutter
  Annotation-free quantification of RNA splicing. Yang I. Li, David A. Knowles, Jack Humphrey, Alvaro N. Barbeira, Scott P. Dickinson, Hae …
  ☆226Updated last year
• bli25 / RSEM_tutorial
  A short tutorial on how to use RSEM
  ☆139Updated 5 years ago
• Xinglab / rmats2sashimiplot
  ☆157Updated 7 months ago
• BoevaLab / FREEC
  Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data
  ☆175Updated last year
• nloyfer / wgbs_tools
  tools for working with Bisulfite Sequencing data while preserving reads intrinsic dependencies
  ☆178Updated last month
• ndaniel / fusioncatcher
  Finder of Somatic Fusion Genes in RNA-seq data
  ☆148Updated 4 months ago
• yupenghe / methylpy
  WGBS/NOMe-seq Data Processing & Differential Methylation Analysis
  ☆146Updated 2 years ago
• im3sanger / dndscv
  dN/dS methods to quantify selection in cancer and somatic evolution
  ☆230Updated 8 months ago
• ENCODE-DCC / chip-seq-pipeline
  ENCODE Uniform processing pipeline for ChIP-seq
  ☆123Updated 5 years ago
• kundajelab / chipseq_pipeline
  AQUAS TF and histone ChIP-seq pipeline
  ☆112Updated 3 years ago
• nf-core / atacseq
  ATAC-seq peak-calling and QC analysis pipeline
  ☆221Updated last month
• jsh58 / Genrich
  Detecting sites of genomic enrichment
  ☆198Updated 2 years ago
• ENCODE-DCC / rna-seq-pipeline
  ☆157Updated 3 years ago
• stevekm / IGV-snapshot-automator
  Script to automatically create and run IGV snapshot batchscripts
  ☆143Updated 3 years ago
• sztup / scarHRD
  ☆118Updated 2 years ago
• signalbash / how_are_we_stranded_here
  Check strandedness of RNA-Seq fastq files
  ☆128Updated 3 years ago
• nf-core / methylseq
  Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark/bwa-meth + MethylDackel or bwa-mem + rastair
  ☆185Updated this week
• parklab / NGSCheckMate
  Software program for checking sample matching for NGS data
  ☆137Updated last year
• ENCODE-DCC / long-rna-seq-pipeline
  STAR based ENCODE Long RNA-Seq processing pipeline
  ☆96Updated 4 years ago
• oncokb / oncokb-annotator
  Annotates variants in MAF with OncoKB annotation.
  ☆138Updated last week
• virajbdeshpande / AmpliconArchitect
  AmpliconArchitect (AA) is a tool to identify one or more connected genomic regions which have simultaneous copy number amplification and …
  ☆157Updated last year
• AstraZeneca-NGS / VarDict
  VarDict
  ☆201Updated 2 years ago
• haowenz / chromap
  Fast alignment and preprocessing of chromatin profiles
  ☆209Updated last week
• niu-lab / msisensor2
  Microsatellite instability (MSI) detection for tumor only data.
  ☆112Updated last year
• FredHutch / SEACR
  SEACR: Sparse Enrichment Analysis for CUT&RUN
  ☆120Updated 3 years ago
• FRED-2 / OptiType
  Precision HLA typing from next-generation sequencing data
  ☆205Updated last year
• RabadanLab / arcasHLA
  Fast and accurate in silico inference of HLA genotypes from RNA-seq
  ☆152Updated last year
• deeptools / HiCExplorer
  HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.
  ☆263Updated 5 months ago