Alternatives and similar repositories for PureCN

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

• parklab / NGSCheckMate
  Software program for checking sample matching for NGS data
  ☆134Updated last year
• ndaniel / fusioncatcher
  Finder of Somatic Fusion Genes in RNA-seq data
  ☆146Updated 2 years ago
• niu-lab / msisensor2
  Microsatellite instability (MSI) detection for tumor only data.
  ☆108Updated last year
• stevekm / IGV-snapshot-automator
  Script to automatically create and run IGV snapshot batchscripts
  ☆141Updated 2 years ago
• brentp / bwa-meth
  fast and accurate alignment of BS-Seq reads using bwa-mem and a 3-letter genome
  ☆149Updated 10 months ago
• gavinha / TitanCNA
  Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer
  ☆97Updated 4 years ago
• geocarvalho / sv-cnv-studies
  Relevant papers for CNV and SV approaches
  ☆94Updated 8 months ago
• humanlongevity / HLA
  xHLA: Fast and accurate HLA typing from short read sequence data
  ☆112Updated last year
• mskcc / facets
  Algorithm to implement Fraction and Copy number Estimate from Tumor/normal Sequencing.
  ☆149Updated 2 years ago
• guigolab / ggsashimi
  Command-line tool for the visualization of splicing events across multiple samples
  ☆130Updated last year
• secastel / phaser
  phasing and Allele Specific Expression from RNA-seq
  ☆116Updated last year
• cancerit / ascatNgs
  Somatic copy number analysis using WGS paired end wholegenome sequencing
  ☆72Updated 4 years ago
• gatk-workflows / gatk4-exome-analysis-pipeline
  This WDL pipeline implements data pre-processing and initial variant calling according to the GATK Best Practices for germline SNP and In…
  ☆53Updated 4 years ago
• raerose01 / deconstructSigs
  deconstructSigs
  ☆142Updated 2 years ago
• CRG-CNAG / CalliNGS-NF
  GATK RNA-Seq Variant Calling in Nextflow
  ☆133Updated 2 years ago
• CenterForMedicalGeneticsGhent / WisecondorX
  WisecondorX — An evolved WISECONDOR
  ☆100Updated 2 weeks ago
• signalbash / how_are_we_stranded_here
  Check strandedness of RNA-Seq fastq files
  ☆124Updated 2 years ago
• davetang / learning_vcf_file
  Learning the Variant Call Format
  ☆140Updated last year
• zhxiaokang / RASflow
  RNA-Seq analysis workflow
  ☆104Updated 4 years ago
• cancerit / cgpBattenberg
  Battenberg algorithm and associated implementation script
  ☆53Updated 4 years ago
• crazyhottommy / pyflow-ChIPseq
  a snakemake pipeline to process ChIP-seq files from GEO or in-house
  ☆108Updated 5 years ago
• kvittingseerup / IsoformSwitchAnalyzeR
  An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)
  ☆115Updated 5 months ago
• cbg-ethz / NGS-pipe
  NGS-pipe: next-generation sequencing pipelines for precision oncology
  ☆111Updated 6 years ago
• ding-lab / CharGer
  Characterization of Germline variants
  ☆98Updated 3 years ago
• dpryan79 / MethylDackel
  A (mostly) universal methylation extractor for BS-seq experiments.
  ☆173Updated last year
• zhou-lab / biscuit
  BISulfite-seq CUI Toolkit
  ☆65Updated 6 months ago
• sztup / scarHRD
  ☆116Updated last year
• AstraZeneca-NGS / reference_data
  Reference data: BED files, genes, transcripts, variations.
  ☆83Updated 7 years ago
• saketkc / gencode_regions
  Extract 3'UTR, 5'UTR, CDS, Promoter, Genes, Introns, Exons from GTF files
  ☆110Updated 3 years ago
• VanLoo-lab / ascat
  ASCAT R package
  ☆184Updated 3 months ago