216 skills found · Page 1 of 8
freebayes / FreebayesBayesian haplotype-based genetic polymorphism discovery and genotyping.
chhylp123 / HifiasmHifiasm: a haplotype-resolved assembler for accurate Hifi reads
Illumina / Hap.pyHaplotype VCF comparison tools
whatshap / WhatshapRead-based phasing of genomic variants, also called haplotype assembly
luntergroup / OctopusBayesian haplotype-based mutation calling
zengxiaofei / HapHiCHapHiC: a fast, reference-independent, allele-aware scaffolding tool based on Hi-C data
lbcb-sci / HerroHERRO is a highly-accurate, haplotype-aware, deep-learning tool for error correction of Nanopore R10.4.1 or R9.4.1 reads (read length of >= 10 kbps is recommended).
vibansal / HapCUT2software tools for haplotype assembly from sequence data
kharchenkolab / NumbatHaplotype-aware CNV analysis from single-cell RNA-seq, ATAC-seq, and multiome
BGI-shenzhen / LDBlockShowLDBlockShow: a fast and convenient tool for visualizing linkage disequilibrium and haplotype blocks based on VCF files
szpiech / SelscanHaplotype based scans for selection
lh3 / DipcallReference-based variant calling pipeline for a pair of phased haplotype assemblies
odelaneau / Shapeit4Segmented HAPlotype Estimation and Imputation Tool
odelaneau / Shapeit5Segmented HAPlotype Estimation and Imputation Tool
rwdavies / STITCHSTITCH - Sequencing To Imputation Through Constructing Haplotypes
KolmogorovLab / WakhanHaplotype-specific somatic copy number aberrations/profiling from long reads sequencing data
poruloh / EagleHaplotype phasing software
eturro / MmseqHaplotype, isoform and gene level expression analysis using multi-mapping RNA-seq reads
bluenote-1577 / FloriaStrain-level haplotyping for metagenomes with short or long-reads.
deepomicslab / SpecHLASpecHLA reconstructs entire diploid sequences of HLA genes and infers LOH events. It supports HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, and -DRB1 genes. Also, it supports both short- and long-read data.
