Pinned Repositories
assembly_accuracy
tools for assessing the accuracy of genome assemblies
bam2fastq
Simple convertor from bam to FASTQ
dbgfm
FM-index representation of a de Bruijn graph
methylation-analysis
nanocorrect
Experimental pipeline for correcting nanopore reads
nanopolish
Signal-level algorithms for MinION data
nanopore-paper-analysis
Code for nanopore paper
ncov-tools
Small collection of tools for performing quality control on coronavirus sequencing data and genomes
sga
de novo sequence assembler using string graphs
smrest
Tumour-only somatic mutation calling using long reads
jts's Repositories
jts/nanopolish
Signal-level algorithms for MinION data
jts/ncov-tools
Small collection of tools for performing quality control on coronavirus sequencing data and genomes
jts/assembly_accuracy
tools for assessing the accuracy of genome assemblies
jts/smrest
Tumour-only somatic mutation calling using long reads
jts/bri
Bam Read Index - Extract alignments from a bam file by readname
jts/mbtools
jts/ncov-watch
Tools for detecting mutations of interest in SARS-CoV-2 sequencing results
jts/ncov2019-artic-nf
A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), with a focus on ncov2019
jts/nanopore_cfdna
jts/ncov-random-scripts
jts/tpdb
jts/modbam_example
jts/align
Sequence Alignment and Scoring
jts/artic-tools
a set of tools for viral amplicon schemes
jts/bamsurgeon
tools for adding mutations to existing .bam files, used for testing mutation callers
jts/bioconda-recipes
Conda recipes for the bioconda channel.
jts/cbw-idge-2023
jts/hts-specs
Specifications of SAM/BAM and related high-throughput sequencing file formats
jts/hts-sys
Raw rust bindings for htslib
jts/htslib
C library for high-throughput sequencing data formats
jts/ivar
iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing.
jts/longshot
diploid SNV caller for error-prone reads
jts/ncov-parser
jts/ncov_parser
A set of libraries for parsing genomic data from the ncov-tools project
jts/pbwt
Implementation of Positional Burrows-Wheeler Transform for genetic data
jts/rna-deconcat
jts/rust-htslib
This library provides HTSlib bindings and a high level Rust API for reading and writing BAM files.
jts/smrest-analysis-pipeline
jts/strline
STR Detection and Counting Pipelines
jts/trf-ideas