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repos: 22.0 gists: 0.0

Name: wtsi-hpag

Type: Organization

Bio: Software tools and pipelines developed by the High Performance Algorithms Group @ the Wellcome Sanger Institute

wtsi-hpag's Projects

ancesbin icon ancesbin

Pipeline to bin 10X, HiC, PacBio and ONT reads based on ancestry assemblies

caus icon caus

CAUS is a pipeline for Chromosome Assignment Using Synteny

chromospa icon chromospa

A Size and Positional Analysis (SPA) tool for studying chromothripsis breakages.

coverageworkshop icon coverageworkshop

A Workshop Notebook used for running a session as part of the OpenLab series.

covidpileup icon covidpileup

Pipeline for building SNP and GAP pileup from multiple COVID-19 whole genome sequences.

deforest icon deforest

A Bayesian method to smooth-out the noise in a coverage dataset, revealing the underlying average behaviour which is constrained to lie on `Harmonics' of a fundamental coverage value.

easychain icon easychain

easyChain is a pipeline to produce a chain file from two genome assemblies.

hiline icon hiline

HiC alignment and classification pipeline

linkstats icon linkstats

Collect and process statistics from aligned linked-reads.

mcsampler icon mcsampler

An MCMC Sampling framework for sampling from arbitrary probability densities.

scaff10x icon scaff10x

Pipeline for scaffolding and breaking a genome assembly using 10x genomics linked-reads

scaffhic icon scaffhic

Pipeline for genome scaffolding by modelling distributions of HiC pairs

scaffhtag icon scaffhtag

Pipeline for scaffolding genome assemblies using haplotagging reads

scanpav icon scanpav

Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.

simdextensionwrapper icon simdextensionwrapper

Generic wrapper program, detects SIMD CPU extensions and launches an appropriate sub-process.

smis icon smis

SMIS: Single Molecular Integrative Scaffolding. A pipeline for scaffolding genome assemblies using long reads (PacBio, ONT)

stepstone icon stepstone

A pipeline for identification of chromothripsis breakpoints and cancer rearrangements

varibase icon varibase

A pipeline to correct variation errors of SNPs/indles from genome assembly

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