alshai

Taher Mun's repositories

levioSAM

Lift-over alignments from variant-aware references

Language:C++MIT34 2 5

r-index

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

Language:C++GPL-3.026 3 2

rowbowt

run-length BWT tools for genomic sequences

Language:C++MIT18 2 2

vcf2msa

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

Language:C1301

Big-BWT

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

Language:C700

pfbwt-f

Prefix Free Parsing Algorthim for building BWTs for genomic data

Language:C++4 10

varcount

Outputs alignment coverage over a predefined set of variants

Language:C++401

hts_utils

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

Language:C++1 10

bioconda-recipes

Conda recipes for the bioconda channel.

Language:Shell000

bioconda-utils

Utilities for building and managing bioconda recipes

Language:PythonMIT000

bowtie

An ultrafast memory-efficient short read aligner

Language:C++NOASSERTION000

bwtstats

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

Language:C++000

genome_inference

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

Language:Python010

gramtools

Genome inference from a population reference graph

Language:C++000

ips4o

In-place Parallel Super Scalar Samplesort (IPS⁴o)

Language:C++BSD-2-Clause000

nanopolish

Signal-level algorithms for MinION data

Language:C++MIT000

pysdsl

Python bindings to Succinct Data Structure Library 2.0

000

ssw-rs

Striped Smith Waterman implementation using Rust and SIMD instructions

Language:Rust010

westwing_sentiment

A sentiment analysis model for The West Wing

Language:Python010

wfa-rs

Rust implementation of Wavefront pairwise alignment algorithm (WFA)

Language:Rust000