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octopus luntergroup

37

305

mit

19

Bayesian haplotype-based mutation calling

phasing genomics variants haplotypes single-cell bioinformatics variant-calling de-novo-mutation somatic-variants

Created 2015-02-04

5,045 commits to develop branch, last one about a year ago

HapHiC zengxiaofei

9

144

bsd-3-clause

4

HapHiC: a fast, reference-independent, allele-aware scaffolding tool based on Hi-C data

t2t hi-c yahs salsa 3d-dna allhic genome hifiasm phasing assembly lachesis haplotype chromosome scaffolding

Created 2023-11-09

89 commits to main branch, last one about a month ago

princess MeHelmy

8

79

mit

4

This repository has no description...

phasing long-reads methylation structural-variation single-nucleotide-variation

Created 2019-04-07

215 commits to master branch, last one 7 months ago

ClairS HKU-BAL

7

77

bsd-3-clause

6

ClairS - a deep-learning method for long-read somatic small variant calling

ont snvs indels pacbio phasing genomics illumina nanopore haplotypes long-reads short-reads deep-learning bioinformatics somatic-variants somatic-mutations long-read-sequencing

Created 2021-07-29

762 commits to main branch, last one 22 days ago

shapeit5 odelaneau

12

73

mit

4

Segmented HAPlotype Estimation and Imputation Tool

phasing haplotype sequencing bioinformatics

Created 2022-03-14

454 commits to main branch, last one 9 months ago

HiPhase PacificBiosciences

4

72

other

7

Small variant, structural variant, and short tandem repeat phasing tool for PacBio HiFi reads

hifi phasing variants pacbio-data structural-variants short-tandem-repeats

Created 2023-02-14

50 commits to main branch, last one 2 months ago

SubPhaser zhangrengang

12

55

gpl-3.0

4

To phase, partition and visualize subgenomes of a neoallopolyploid or hybrid based on the subgenome-specific repetitive kmers.

kmer phasing exchange partition subgenome allopolyploid

Created 2021-08-25

120 commits to master branch, last one 8 months ago

nPhase OmarOakheart

5

42

gpl-3.0

4

Ploidy agnostic phasing pipeline and algorithm

phasing polyploid bioinformatics bioinformatics-pipeline

Created 2020-03-30

142 commits to master branch, last one 11 months ago