Alternatives and similar repositories for vcf-annotate-polyphen

Users that are interested in vcf-annotate-polyphen are comparing it to the libraries listed below

• Clinical-Genomics / BALSAMIC
  Bioinformatic Analysis pipeLine for SomAtic Mutations In Cancer
  ☆47Updated this week
• morrislab / pairtree
  Pairtree is a method for reconstructing cancer evolutionary history in individual patients, and analyzing intratumor genetic heterogeneit…
  ☆37Updated last year
• namphuon / ViFi
  Pipeline for identifying viral integration and fusion mRNA reads from NGS data. Manuscript is currently in preparation.
  ☆28Updated 3 years ago
• InscriptaLabs / BioCantor
  ☆22Updated last year
• sbg / smart-variant-filtering
  ☆29Updated 4 years ago
• appris / appris
  Annotating principal splice isoforms
  ☆14Updated 8 months ago
• quinlan-lab / pathoscore
  pathoscore evaluates variant pathogenicity tools and scores.
  ☆21Updated 3 years ago
• datapplab / pathview
  pathway based data integration and visualization
  ☆41Updated 3 months ago
• alevar / ORFanage
  Ultra-efficient and sensitive method to search for Open Reading Frames in spliced genomes guided by reference annotation to maximize prot…
  ☆31Updated 2 weeks ago
• billgreenwald / pgltools
  Paired Genomic Loci Tool Suite
  ☆30Updated 2 years ago
• ambj / MuPeXI
  MuPeXI: the mutant peptide extractor and informer, a tool for predicting neo-epitopes from tumor sequencing data.
  ☆50Updated 5 years ago
• HurlesGroupSanger / DeNovoWEST
  ☆21Updated 2 months ago
• pinellolab / AmpUMI
  Toolkit for the design and analysis of amplicon sequencing experiments utilizing unique molecular identifiers (UMIs)
  ☆41Updated last year
• ExpressionAnalysis / STAR-SEQR
  RNA Fusion Detection and Quantification
  ☆17Updated 6 years ago
• CCBR / Pipeliner
  An open-source and scalable solution to NGS analysis powered by the NIH's Biowulf cluster.
  ☆4Updated last year
• jfjlaros / demultiplex
  Versatile FASTA/FASTQ demultiplexer.
  ☆33Updated last year
• ding-lab / somaticwrapper
  Detect somatic variants from tumor and normal WGS/WXS data
  ☆18Updated last month
• pachterlab / kma
  Keep Me Around: Intron Retention Detection
  ☆29Updated 6 years ago
• lkuchenb / MultiHLA
  WES HLA Typing based on multiple alternative tools
  ☆17Updated 4 years ago
• complextissue / pytximport
  Feature-rich Python implementation of the tximport package for gene count estimation.
  ☆36Updated last month
• HudsonAlpha / CSL_public_benchmark
  Location of public benchmarking; primarily final results
  ☆18Updated 4 months ago
• broadinstitute / CODECsuite
  analysis pipeline for CODEC data
  ☆11Updated 3 weeks ago
• Guannan-Wang / GOMCL
  GOMCL: a toolkit to cluster, evaluate, and extract non-redundant associations of Gene Ontology-based functions
  ☆21Updated last year
• viq854 / lichee
  Multi-sample cancer phylogeny reconstruction
  ☆35Updated 7 years ago
• dongxuemin666 / RNA-combine
  RNA-seq data comprehensive data analysis toolbox
  ☆19Updated 2 years ago
• jeremymcrae / clinical-filter
  filtering trio-based genetic variants in VCFs for clinical review
  ☆21Updated 4 years ago
• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆42Updated 3 years ago
• Oshlack / MINTIE
  Method for Identifying Novel Transcripts and Isoforms using Equivalence classes, in cancer and rare disease.
  ☆35Updated 11 months ago
• cancerit / alleleCount
  Support code for NGS copy number algorithms. Takes a file of locations and a [cr|b]am file and generates a count of coverage of each alle…
  ☆45Updated 2 years ago
• nf-core / circdna
  Pipeline for the identification of extrachromosomal circular DNA (ecDNA) from Circle-seq, WGS, and ATAC-seq data that were generated from…
  ☆30Updated 3 weeks ago