Alternatives and similar repositories for hileup

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

• lh3 / klib.nim
  Experimental getopt, gzip reader, FASTA/Q parser and interval queries in nim-lang
  ☆31Updated 5 years ago
• brentp / seqcover
  seqcover allows users to view coverage for hundreds of genes and dozens of samples
  ☆52Updated 4 years ago
• HTGenomeAnalysisUnit / SCE-VCF
  Sample Contamination Estimate from VCF
  ☆20Updated last year
• brentp / spacepile
  convert reads from repeated measures of same piece of DNA into spaced matricies for deep learners.
  ☆14Updated 2 years ago
• brentp / tnsv
  add true-negative SVs from a population callset to a truth-set.
  ☆15Updated 3 years ago
• kcleal / SV_Benchmark_CMRG_GIAB
  Structural variant benchmark
  ☆21Updated 9 months ago
• andreas-wilm / nimreadfq
  A wrapper to Heng Li's kseq/readfq, an efficient FastQ/Fasta parser
  ☆15Updated 2 years ago
• brentp / pbr
  drunk on perbase pileups and lua expressions
  ☆19Updated 3 weeks ago
• jts / bri
  Bam Read Index - Extract alignments from a bam file by readname
  ☆28Updated last year
• quinlan-lab / STRling
  Detect novel (and reference) STR expansions from short-read data
  ☆69Updated last week
• brentp / fraguracy
  overlapping bases in read-pairs from a fragment indicate accuracy and reveal error-prone sites
  ☆33Updated 6 months ago
• telatin / covtobed
  ⛰ covtobed | Convert the coverage track from a BAM file into a BED file
  ☆44Updated last month
• HudsonAlpha / CSL_public_benchmark
  Location of public benchmarking; primarily final results
  ☆18Updated 9 months ago
• mbhall88 / pafpy
  A lightweight library for working with PAF (Pairwise mApping Format) files
  ☆30Updated 3 years ago
• SeqOne / variant_alert
  Variant Alert!, a framework to monitor every significant alteration in variant classification and gene-disease association between two ve…
  ☆14Updated 4 years ago
• nygenome / Lancet2
  v2.x of the microassembly based somatic variant caller
  ☆23Updated 4 months ago
• fulcrumgenomics / fgpyo
  Quality of life improvements for Bioinformatics in Python.
  ☆31Updated last week
• SeqOne / clinvcf
  Generate an enhanced VCF files from ClinVar XML Full releases
  ☆15Updated 2 years ago
• Illumina / witty.er
  What is true, thank you, ernestly. A large variant benchmarking tool analogous to hap.py for small variants.
  ☆34Updated 2 years ago
• 0xTCG / haptreex
  Haplotype phaser for next-generation sequencing data
  ☆13Updated 3 years ago
• Platinum-Pedigree-Consortium / Platinum-Pedigree-Datasets
  ☆36Updated 10 months ago
• 38 / pyd4
  The python binding for D4 format
  ☆16Updated 4 years ago
• brentp / tiwih
  simple bioinformatics command-line (t)ools (i) (w)ished (i) (h)ad.
  ☆44Updated 2 years ago
• fulcrumgenomics / fgsv
  Tools to gather evidence for structural variation via breakpoint detection.
  ☆19Updated 2 weeks ago
• gjun / muCNV
  ☆20Updated 2 years ago
• J35P312 / FindSV
  Structural variant pipeline
  ☆17Updated 5 years ago
• GooglingTheCancerGenome / sv-channels
  Deep learning-based structural variant filtering method
  ☆39Updated 2 years ago
• brwnj / covviz
  Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata
  ☆58Updated 3 years ago
• myriad-opensource / samwell
  Samwell: a python package for using genomic files... well
  ☆20Updated 3 years ago
• genomics-dev / variantkey
  Numerical Encoding for Human Genetic Variants
  ☆42Updated 2 years ago