Alternatives and similar repositories for panpop

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

• YaoZhou89 / TGG
  tomato graph pangenome
  ☆85Updated 2 years ago
• ArimaGenomics / mapping_pipeline
  Mapping pipeline for data generated using Arima-HiC
  ☆80Updated last year
• sheinasim-USDA / HiFiAdapterFilt
  Remove CCS reads with remnant PacBio adapter sequences and convert outputs to a compressed .fastq (.fastq.gz).
  ☆92Updated last year
• PacificBiosciences / pb-CpG-tools
  Collection of tools for the analysis of CpG data
  ☆94Updated 2 months ago
• CSU-KangHu / HiTE
  High-precision TE Annotator
  ☆129Updated this week
• eldariont / svim-asm
  Structural Variant Identification Method using Genome Assemblies
  ☆123Updated 3 years ago
• lh3 / srf
  SRF: Satellite Repeat Finder
  ☆97Updated last year
• qjiangzhao / TEtrimmer
  TEtrimmer: a novel tool to automate manual curation of transposable elements
  ☆76Updated 2 weeks ago
• yeeus / GCI
  A program for assessing the T2T genome continuity
  ☆84Updated this week
• SAMtoBAM / MUMandCo
  MUM&Co is a simple bash script that uses Whole Genome Alignment information provided by MUMmer (only v4) to detect Structural Variation
  ☆72Updated 2 weeks ago
• tanghaibao / allhic
  Genome scaffolding based on HiC data in heterozygous and high ploidy genomes
  ☆60Updated 8 months ago
• mapleforest / HaploMerger2
  ☆44Updated 8 years ago
• lh3 / dipcall
  Reference-based variant calling pipeline for a pair of phased haplotype assemblies
  ☆103Updated 4 years ago
• Maggi-Chen / DeBreak
  Structural variant caller for real-time long-read sequencing data
  ☆57Updated 2 years ago
• santiagosnchez / vcf2fasta
  Converts a VCF file to a FASTA alignment provided a reference genome and a GFF file
  ☆51Updated last month
• YangJianshun / LINKVIEW2
  DNA序列比对结果 可视化展示工具
  ☆54Updated 2 years ago
• PacificBiosciences / HiFiCNV
  Copy number variant caller and depth visualization utility for PacBio HiFi reads
  ☆43Updated 10 months ago
• clemgoub / dnaPipeTE
  dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify T…
  ☆58Updated 2 years ago
• EichlerLab / pav
  Phased assembly variant caller
  ☆125Updated 9 months ago
• wurmlab / flo
  Same species annotation lift over pipeline.
  ☆98Updated 2 years ago
• EVidenceModeler / EVidenceModeler
  source code for EVM
  ☆117Updated 9 months ago
• colindaven / awesome-pangenomes
  A list of software for pangenomics
  ☆128Updated 2 weeks ago
• Jwindler / AutoHiC
  A novel genome assembly pipeline based on deep learning
  ☆65Updated 9 months ago
• phasegenomics / juicebox_scripts
  A collection of scripts for working with Hi-C data, Juicebox, and other genomic file formats
  ☆68Updated 4 years ago
• 4ureliek / Parsing-RepeatMasker-Outputs
  Few scripts facilitating the extraction of info from Repeat Masker .out files
  ☆83Updated 4 years ago
• LiLabAtVT / DeepTE
  Neural network classification of TE
  ☆96Updated 3 months ago
• lh3 / minipileup
  Simple pileup-based variant caller
  ☆91Updated 4 months ago
• mahulchak / svmu
  A program to call variants from genome alignment
  ☆81Updated 4 months ago
• 0xTCG / biser
  A fast tool for detecting and decomposing segmental duplications in genome assemblies
  ☆50Updated 2 months ago
• xiaochuanle / MECAT2
  ☆71Updated 5 years ago