Alternatives and similar repositories for higlass-pileup

Users that are interested in higlass-pileup are comparing it to the libraries listed below

• fulcrumgenomics / fgsv
  Tools to gather evidence for structural variation via breakpoint detection.
  ☆19Updated 6 months ago
• myriad-opensource / samwell
  Samwell: a python package for using genomic files... well
  ☆20Updated 3 years ago
• tobiasrausch / lorax
  A long-read analysis toolbox for cancer and population genomics
  ☆23Updated 3 months ago
• jts / bri
  Bam Read Index - Extract alignments from a bam file by readname
  ☆28Updated last year
• marbl / T2T-Browser
  Genome browser hub for the T2T genomes and resources
  ☆23Updated 3 weeks ago
• ChaissonLab / hmcnc
  Hidden Markov Model based Copy number caller
  ☆20Updated last year
• brentp / tnsv
  add true-negative SVs from a population callset to a truth-set.
  ☆15Updated 3 years ago
• AndreaGuarracino / chain2paf
  convert CHAIN format to PAF format
  ☆14Updated 10 months ago
• quinlan-lab / bedqc
  BED QC tool (in the making)
  ☆16Updated 3 years ago
• xuxif / DeepMEI
  A CNN model to identify MEIs in WGS
  ☆12Updated 7 months ago
• collaborativebioinformatics / STRdust
  ☆13Updated 3 years ago
• cvdelannoy / poreTally
  Benchmark MinION assembler pipelines and publish your results in a heartbeat!
  ☆15Updated 5 years ago
• HudsonAlpha / CSL_public_benchmark
  Location of public benchmarking; primarily final results
  ☆18Updated 8 months ago
• collaborativebioinformatics / GeneVar
  ☆12Updated 4 years ago
• mcfrith / dnarrange
  ☆16Updated 9 months ago
• vgteam / GetBlunted
  For bluntifying overlapped GFAs
  ☆13Updated last year
• mikolmogorov / pbclip
  A simple tool to fix PacBio fasta/q that was not properly split into subreads
  ☆16Updated 4 years ago
• langmead-lab / reference_flow
  Reducing reference bias using multiple population reference genomes
  ☆34Updated last year
• luntergroup / bamsplit
  Split a BAM file by haplotype support
  ☆16Updated 7 years ago
• aganezov / RCK
  RCK: Reconstruction of clone- and haplotype-specific Cancer Karyotypes
  ☆17Updated 5 years ago
• fritzsedlazeck / nibSV
  Kmer based genotyper for short reads.
  ☆23Updated 4 years ago
• Magdoll / CoSA
  Coronavirus (SARS-Cov-2) sequencing analysis
  ☆10Updated 4 years ago
• jts / mbtools
  ☆14Updated 2 years ago
• dnanexus / IndexTools
  IndexTools is a toolkit for extremely fast NGS analysis based on index files.
  ☆17Updated 3 years ago
• ptrebert / project-diploid-assembly
  Pipeline code for creating a fully haplotype-resolved assembly from a combination of PacBio/ONT long reads and Illumina Strand-seq data
  ☆16Updated last year
• ACEnglish / usable_vcf
  Run multiple programs to check if a VCF is usable
  ☆11Updated 5 years ago
• rhpvorderman / sequali
  Fast sequencing data quality metrics
  ☆28Updated last month
• pierrepeterlongo / kmer2sequences
  Given a set of kmers (fasta format) and a set of sequences (fasta format), this tool will extract the sequences containing the kmers.
  ☆21Updated 2 years ago
• wdecoster / kyber
  ☆21Updated 9 months ago
• brentp / fraguracy
  overlapping bases in read-pairs from a fragment indicate accuracy and reveal error-prone sites
  ☆33Updated 4 months ago