shenwei356

bio_scripts

Practical, reusable scripts for bioinformatics

easy_sbatch

easy_sbatch - Batch submitting Slurm jobs with script templates

memusg

A 'time'-like utility for Unix that measures peak memory usage

ncbi_acc2gtdb_acc

Mapping NCBI Genbank accession to GTDB accession

strobemers

A Go implementation of the strobemers (https://github.com/ksahlin/strobemers)

breader

breader (Buffered File Reader), asynchronous parsing and pre-processing while reading file. Safe cancellation is also supported.

unik

A k-mer serialization package for Golang

breseq-rm-bg

Removing control/background mutations from breseq output index.html

dirsize

Summarize sizes of directories and files in directories

biofast

Benchmarking programming languages/implementations for common tasks in Bioinformatics

go-hashing-kmer-bench

Benchmark of hashing k-mers in Golang

uint64-hash-bench

Benchmark of three uint64 hash functions

blast-nf

A nextflow-based BLAST command-line helper tool

genome_updater

Bash script to download/update snapshots of files from NCBI genomes repository (refseq/genbank) with track of changes and without redundancy

simhash-eval

sun2021-cami-profiles

Ground truth metagenomic profiles in CAMI format for the 25 metagenomic reads in Sun et al.

cami2_pipelines

assembly, binning, profiling pipelines for CAMI2

homebrew-bio

:beer::microscope: Bioinformatics formulae for the Homebrew and Linuxbrew package managers

natsort

Natural strings sorting in Go

roux2016-mock-virome-cami-profile

Ground truth metagenomic profiles in CAMI format for the mock virome communities in Roux et al.

shenwei356.github.io

todo

A very simple online todo list application

bench

some benchmarks

bench-kmers

bloomfilter

Face-meltingly fast, thread-safe, marshalable, unionable, probability- and optimal-size-calculating Bloom filter in go

gtdb_to_taxdump

Convert GTDB taxonomy to NCBI taxdump format

homebrew-core

🍻 Default formulae for the missing package manager for macOS

khash

khash and khashl in golang

mmap-go

A portable mmap package for Go

nthash

Go implementation of ntHash