Alternatives and similar repositories for cfDNApipe

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

• OSU-SRLab / MANTIS
  Microsatellite Analysis for Normal-Tumor InStability
  ☆75Updated 3 years ago
• OpenGene / ctdna-pipeline
  A simplified pipeline for ctDNA sequencing data analysis
  ☆37Updated 8 years ago
• sztup / scarHRD
  ☆118Updated 2 years ago
• xjtu-omics / msisensor-pro
  Microsatellite Instability (MSI) detection using high-throughput sequencing data.
  ☆115Updated 8 months ago
• cancer-genomics / delfi_scripts
  ☆74Updated 4 years ago
• YangLab / CIRCexplorer2
  circular RNA analysis toolset
  ☆86Updated last year
• niu-lab / msisensor2
  Microsatellite instability (MSI) detection for tumor only data.
  ☆112Updated last year
• AstraZeneca-NGS / reference_data
  Reference data: BED files, genes, transcripts, variations.
  ☆88Updated 8 years ago
• iprada / Circle-Map
  A method for circular DNA detection based on probabilistic mapping of ultrashort reads
  ☆66Updated last year
• FoundationMedicineInc / SGZ
  ☆43Updated last year
• shendurelab / cfDNA
  Analysis of epigenetic signals captured by fragmentation patterns of cell-free DNA
  ☆77Updated 5 years ago
• WGLab / CancerVar
  Clinical interpretation of somatic mutations in cancer
  ☆50Updated 10 months ago
• broadinstitute / PhylogicNDT
  ☆82Updated 8 months ago
• xuzhougeng / R-ChIP-data-analysis
  ☆50Updated 7 years ago
• TRON-Bioinformatics / seq2HLA
  In-silico method written in Python and R to determine HLA genotypes of a sample. seq2HLA takes standard RNA-Seq sequence reads in fastq f…
  ☆50Updated 4 months ago
• TrinityCTAT / Trinity_CTAT
  ☆120Updated 2 years ago
• nccl-jmli / VarBen
  ☆36Updated 4 years ago
• AmpliconSuite / AmpliconSuite-pipeline
  A quickstart tool for AmpliconArchitect. Enables all steps (alignment, CNV calling, seed interval detection) prior to running AmpliconArc…
  ☆76Updated last week
• AAlhendi1707 / countToFPKM
  Convert Counts to Fragments per Kilobase of Transcript per Million (FPKM)
  ☆63Updated 4 years ago
• RabadanLab / arcasHLA
  Fast and accurate in silico inference of HLA genotypes from RNA-seq
  ☆150Updated last year
• dinhdiep / MONOD2
  MONOD2 is a toolkit for methylation haplotype analysis of bisulfite sequencing data
  ☆40Updated 6 years ago
• BioinfoUNIBA / REDItools
  REDItools are python scripts to investigate RNA editing at genomic scale.
  ☆69Updated 5 months ago
• oncokb / oncokb-annotator
  Annotates variants in MAF with OncoKB annotation.
  ☆138Updated 3 weeks ago
• ndaniel / fusioncatcher
  Finder of Somatic Fusion Genes in RNA-seq data
  ☆148Updated 3 months ago
• bcgsc / mirna
  microRNA profiling pipeline
  ☆79Updated 3 years ago
• broadinstitute / gistic2
  Genomic Identification of Significant Targets in Cancer (GISTIC), version 2
  ☆53Updated 3 years ago
• ENCODE-DCC / hic-pipeline
  HiC uniform processing pipeline
  ☆62Updated 2 years ago
• bioinfo-pf-curie / TMB
  Tumor Mutational Burden
  ☆63Updated 5 months ago
• humanlongevity / HLA
  xHLA: Fast and accurate HLA typing from short read sequence data
  ☆113Updated 2 years ago
• zhxiaokang / RASflow
  RNA-Seq analysis workflow
  ☆105Updated 4 years ago