Alternatives and similar repositories for DeepSVP

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

• VCCRI / dv-trio
  dv-trio provides a pipeline to call variants for a trio (father-mother-child) using DeepVariants [1]. Genomic Variant Calling Files (gVCF…
  ☆11Updated 4 years ago
• TNTurnerLab / HAT
  HAT is a set of tools for calling de novo variants from whole-genome sequencing data.
  ☆24Updated 2 months ago
• aganezov / RCK
  RCK: Reconstruction of clone- and haplotype-specific Cancer Karyotypes
  ☆18Updated 5 years ago
• DecodeGenetics / LRS_SV_sets
  VCF files of SVs using long-read sequencing (LRS).
  ☆22Updated 4 years ago
• collaborativebioinformatics / STRdust
  ☆13Updated 3 years ago
• ComparativeGenomicsToolkit / mafTools
  Bioinformatics tools for dealing with Multiple Alignment Format (MAF) files.
  ☆11Updated 6 months ago
• sinamajidian / phaseme
  A tool set to assess the quality of the per read phasing and reduce the errors.
  ☆13Updated 5 years ago
• NCBI-Hackathons / HLAClustRView
  R package specialized in HLA typing clustering and visualization based on specific similarity metrics
  ☆14Updated 6 years ago
• mcfrith / dnarrange
  ☆16Updated last year
• gjun / muCNV
  ☆20Updated 2 years ago
• luntergroup / polyploid
  Benchmarking variant calling in polyploids
  ☆15Updated 4 years ago
• genomic-medicine-sweden / tomte
  A nextflow pipeline for analysing expression and splicing in RNA seq data from rare disease patient
  ☆18Updated 2 months ago
• uclahs-cds / tool-NFTest
  CLI to automate Nextflow pipeline testing
  ☆12Updated last month
• ChaissonLab / hmcnc
  Hidden Markov Model based Copy number caller
  ☆20Updated last month
• ETCHING-team / ETCHING
  Ultra-fast, high-performing structural variation (SV) detector
  ☆23Updated 2 years ago
• jfoox / abrfngs2
  Analysis and figure generation code for the ABRF NGS Phase II Study on DNA-seq reproducibility
  ☆18Updated 4 years ago
• bioinfo-ut / GeneToCN
  Gene copy number prediction from k-mer frequencies
  ☆14Updated last year
• CMU-SAFARI / FastRemap
  FastRemap, a C++ tool for quickly remapping reads between genome assemblies based on the commonly used CrossMap tool. Link to paper: http…
  ☆26Updated 3 years ago
• collaborativebioinformatics / GeneVar
  ☆12Updated 4 years ago
• DecodeGenetics / read_haps
  Detects human contamination in bam files
  ☆16Updated 5 years ago
• lh3 / unicall
  A wrapper for calling small variants from human germline high-coverage single-sample Illumina data
  ☆14Updated 6 years ago
• KiddLab / QuicK-mer2
  ☆11Updated 2 years ago
• wdecoster / surpyvor
  A python wrapper around SURVIVOR
  ☆20Updated last year
• dantaki / CNVplot
  Plot CNV data with a genome viewer in R
  ☆15Updated 8 years ago
• brentp / tnsv
  add true-negative SVs from a population callset to a truth-set.
  ☆15Updated 3 years ago
• ktan8 / nanopore_telomere_basecall
  ☆15Updated 2 years ago
• arangrhie / T2T-HG002Y
  Code repository for the T2T-Y paper
  ☆24Updated 2 years ago
• fritzsedlazeck / SURVIVOR_ant
  A framework to annotate SVs with previous known SVs (vcf file) and or with genomic features (gff and or bed files)
  ☆13Updated 7 years ago
• gagneurlab / splicemap
  ☆23Updated 5 months ago
• frazer-lab / i2QTL-SV-STR-analysis
  Code used to process and analyze structural variants and short tandem repeat variants profiled in 719 deeply sequenced whole genomes as p…
  ☆11Updated 6 years ago