Alternatives and similar repositories for archetypal-analysis

Users that are interested in archetypal-analysis are comparing it to the libraries listed below

• ksiewert / BetaScan
  Genome-wide scan for balancing selection using beta statistic
  ☆29Updated 2 years ago
• alachins / sweed
  Likelihood-based Selective Sweep Detection
  ☆40Updated 2 years ago
• mkirsche / Iris
  A module for improving the insertion sequences of structural variant calls
  ☆33Updated 4 years ago
• vgteam / giraffe-sv-paper
  ☆44Updated last year
• wtsi-hpag / scanPAV
  Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.
  ☆29Updated 7 years ago
• vgteam / sv-genotyping-paper
  ☆31Updated 6 years ago
• AnimalGenomicsETH / bovine-graphs
  Integrate multiple genome assemblies into a pangenome graph
  ☆35Updated 3 years ago
• JBerthelier / ParasiTE
  Invertory of TE-gene isoforms
  ☆13Updated 2 years ago
• bcm-uga / Loter
  A software package for local ancestry inference and haplotype phasing
  ☆43Updated 2 years ago
• clemgoub / rm2gff3
  Convert RepeatMasker ".out" file into a gff3 with colors!!!
  ☆24Updated 5 years ago
• Rosemeis / HaploNet
  Haplotype and population structure inference using neural networks.
  ☆27Updated last year
• ChenHuaLab / CEGA
  Inferring natural selection by comparative population genomic analysis across species
  ☆25Updated 2 years ago
• avaughn271 / CLUES2
  The GitHub for CLUES2, a method for inferring and evaluating evidence for selection.
  ☆16Updated 8 months ago
• pdimens / LepWrap
  A pipeline to use Lep-Map3 to create linkage maps and LepAnchor for anchoring and orienting genome assemblies with said linkage maps.
  ☆14Updated 6 months ago
• yiliao1022 / LASTZ_SV_pipeline
  ☆16Updated 6 years ago
• schneebergerlab / GameteBinning_tetraploid
  This is used to achieve haplotype-resolved assembly of tetraploid genomes using gamete sequencings
  ☆12Updated 4 years ago
• pkalbers / geva
  Genealogical Estimation of Variant Age (GEVA)
  ☆32Updated 4 years ago
• danjlawson / badMIXTURE
  R package for comparing mixture solutions to similarity data, with a focus STRUCTURE like models to ChromoPainter palettes
  ☆29Updated 6 years ago
• Xinglab / TideHunter
  TideHunter: efficient and sensitive tandem repeat detection from noisy long reads using seed-and-chain
  ☆21Updated last year
• smehringer / SViper
  Swipe your Structural Variants called on long (ONT/PacBio) reads with short exact (Illumina) reads.
  ☆32Updated 3 years ago
• jaredgk / PPP
  Repository for pipeline code
  ☆26Updated last year
• LeanQ / SPLITREADER
  Split-read pipeline for the identification of non-reference TE insertions with TSDs
  ☆25Updated 5 years ago
• SamueleSoraggi / HMMploidy
  A tool to calculate ploidy levels from genotype likelihoods and coverage using Hidden Markov Models
  ☆18Updated 3 years ago
• dfguan / pin_hic
  A Hi-C scaffolding method
  ☆22Updated 4 years ago
• pangenome / vcfbub
  use variant nesting information to flter overlapping sites from vg deconstruct output
  ☆31Updated 6 months ago
• schatzlab / crossstitch
  Code for phasing SVs with SNPs
  ☆52Updated 5 years ago
• ChenHuaLab / HaploSweep
  HaploSweep is a method for detecting and categorizing soft and hard selective sweeps based on haplotype structure.
  ☆11Updated last year
• CshlSiepelLab / argweaver
  Sampling and manipulating genome-wide ancestral recombination graphs (ARGs)
  ☆14Updated 2 years ago
• itojal / hot_scan
  hot_scan is a free software to detect genomic regions unusually rich (hotspot) in a given pattern via scan statistics
  ☆10Updated 12 years ago
• zstephens / telogator
  A method for measuring chromosome-specific telomere length from long reads
  ☆22Updated last year