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Taher Mun's Projects

big-bwt icon big-bwt

modified from gitlab.com/manzai/Big-BWT to support fasta files

bowtie icon bowtie

An ultrafast memory-efficient short read aligner

bwtstats icon bwtstats

prints out some relevant stats related to the Burrows-Wheeler Transform (BWT) of a sequence

genome_inference icon genome_inference

snakemake workflow for creating a personal genome through low-coverage imputation.

gramtools icon gramtools

Genome inference from a population reference graph

hts_utils icon hts_utils

C++ library and recipes for handling high-throughput sequencing data. Requires htslib

ips4o icon ips4o

In-place Parallel Super Scalar Samplesort (IPS⁴o)

leviosam icon leviosam

Lift-over alignments from variant-aware references

pfbwt-f icon pfbwt-f

Prefix Free Parsing Algorthim for building BWTs for genomic data

pysdsl icon pysdsl

Python bindings to Succinct Data Structure Library 2.0

r-index icon r-index

An optimal space run-length Burrows-Wheeler transform full-text index

rowbowt icon rowbowt

run-length BWT tools for genomic sequences

ssw-rs icon ssw-rs

Striped Smith Waterman implementation using Rust and SIMD instructions

varcount icon varcount

Outputs alignment coverage over a predefined set of variants

vcf2msa icon vcf2msa

convert a multi-sample VCF file to a multiple sequence alignment (C)

wfa-rs icon wfa-rs

Rust implementation of Wavefront pairwise alignment algorithm (WFA)

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