Pinned Repositories
chr_phase_plot
Matplotlib plot of phase blocks from GTF
hla_db_util
Utilities for making sense of the IMGT/HLA database
untangle
vr-codebase
The overall codebase developed and used by the Vertebrate Resequencing group at the Sanger Institute
vr-pipe
Generic pipeline system
mp15's Repositories
mp15/chr_phase_plot
Matplotlib plot of phase blocks from GTF
mp15/bcftools
This is the official development repository for BCFtools. To compile, the develop branch of htslib is needed: git clone --branch=develop git://github.com/samtools/htslib.git htslib
mp15/BioNanoAnalyst
BioNanoAnalyst is a tool providing GUI to assess the genome assembly quality using BioNano data.
mp15/bwa
Burrow-Wheeler Aligner
mp15/bwa-mem2
MP15's private working fork of bwa-mem2
mp15/codecarbon
mp15's working fork of codecarbon for Pull requests etc.
mp15/dorado
Oxford Nanopore's Basecaller (mp15 working copy)
mp15/FALCON
FALCON: experimental PacBio diploid assembler -- Out-of-date -- Please use a binary release: https://github.com/PacificBiosciences/FALCON_unzip/wiki/Binaries
mp15/FastQ-Screen
(working copy) Detecting contamination in NGS data and multi-species analysis
mp15/genomicsbench
A benchmark suite to study the performance characteristics of genomics applications
mp15/graviton-builder
CDK builder for building graviton hosts for the benchmark suite
mp15/hapdup
Pipeline to convert a haploid assembly into diploid (working copy)
mp15/htslib
C library for high-throughput sequencing data formats (MP15 private repo)
mp15/irods
Open Source Data Management Software
mp15/juicer
A One-Click System for Analyzing Loop-Resolution Hi-C Experiments
mp15/minimap2
A versatile pairwise aligner for genomic and spliced nucleotide sequences
mp15/nf-core_configs
working fork of NF cores Config files used to define parameters specific to compute environments at different Institutions
mp15/npg_conda
NPG Conda recipes and tools
mp15/npg_seq_pipeline
Processing and analysis of data coming from Illumina sequencing machines
mp15/nvbio
NVBIO is a library of reusable components designed to accelerate bioinformatics applications using CUDA.
mp15/perl-irods-wrap
Perl iRODS Client Wrapper Library
mp15/py-cpuinfo
A module for getting CPU info with pure Python (working tree)
mp15/pybedtools
Python wrapper -- and more -- for Aaron Quinlan's BEDTools (bioinformatics tools)
mp15/samtools
MP15's working samtools repo (not official release expect rebases)
mp15/sniffles_circos
A way to make a CIRCOS plot of Sniffles BED files
mp15/tombo
Private fork of Tombo is a suite of tools primarily for the identification of modified nucleotides from raw nanopore sequencing data.
mp15/VariantWorks
Deep Learning based variant calling toolkit - https://clara-parabricks.github.io/VariantWorks/
mp15/webatlas-app
(fork for edits only) An application to display spatial and single-cell experiment data. Built in React, on the Vitessce framework.
mp15/whatshap
(private dev repo) Read-based phasing of genomic variants, also called haplotype assembly
mp15/WSL2-Linux-Kernel
The source for the Linux kernel used in Windows Subsystem for Linux 2 (WSL2)