heathsc Goto Github PK

analyze_ref_gc

Analyze distribution GC content of reference genome in FASTA format for a range of read lengths. Intended to allow comparison of GC content of short read, fixed length, NGS data with expectations under a model of random fragment selection.

baldur

Variant (SNV and small indel) calling from ONT sequencing data on the mitochondria

bam2bedmethyl

bedmethyl

Tools for processing BedMethyl files

bs_call

DNA methylation and variant Caller for Bisulfite Sequencing Data.

compress_io

Convenience library for reading and writing compressed files/streams

fast_dss

Library implementing an improved DSS version for testing methylation from sequence data

fastq_gc

Utility to estimate GC distribution from FASTQ file

fastq_merge

Utility to merge FASTQ and sequencing summary files from duplex and simplex base Guppy callings of Nanopore Q20+ sequence reads

gc_collect

gembs

gemBS is a bioinformatics pipeline designed for high throughput analysis of DNA methylation from Whole Genome Bisulfite Sequencing data (WGBS).

gembs-rs

A re-write of the gemBS pipeline framework in Rust

hts-specs

Specifications of SAM/BAM and related high-throughput sequencing file formats

json_rs

lbtools

meltr

Automated fitting of RNA/DNA absorbance melting curves and fluorescence binding isotherms in R

ont_align_stats

ont_demult

Utility to demultiplex ONT reads using mapping to CRISPR cut sites to split the reads

pyjip

JIP Pipeline System

r_htslib

Lightweight wrapper around htslib for access to SAM/BAM/CRAM/BCF/VCF files

stat_functions

Useful statistical functions