botond-sipos

botond-sipos's Stars

• paoloshasta/shasta

  De novo assembly from Oxford Nanopore reads.

  Language:C++7411

• rchikhi/rust-parallelfastx

  Parallel iteration of FASTA/FASTQ files, for when sequence order doesn't matter but speed does

  Language:Rust93

• lh3/psmc

  Implementation of the Pairwise Sequentially Markovian Coalescent (PSMC) model

  Language:C15660

• hasindu2008/f5c

  Ultra-fast methylation calling and event alignment tool for nanopore sequencing data (supports CUDA acceleration)

  Language:C14326

• traefik/yaegi

  Yaegi is Another Elegant Go Interpreter

  Language:Go7.1k352

• adamewing/bamsurgeon

  tools for adding mutations to existing .bam files, used for testing mutation callers

  Language:Python23386

• holtgrewe/mason3

  Mason read simulator version 3 (with 100% more emojis and Rust)

  Language:Rust4

• fitzgen/histo

  Histograms with a configurable number of buckets, and a terminal-friendly Display.

  Language:Rust296

• datavzrd/datavzrd

  A tool to create visual HTML reports from collections of CSV/TSV tables

  Language:Rust1035

• ACEnglish/truvari

  Structural variant toolkit for VCFs

  Language:Python32248

• crossbeam-rs/crossbeam

  Tools for concurrent programming in Rust

  Language:Rust7.5k469

• schatzlab/genomescope

  Fast genome analysis from unassembled short reads

  Language:JavaScript25856

• fritzsedlazeck/Sniffles

  Structural variation caller using third generation sequencing

  Language:Python56094

• ocxtal/qr

  print QR code on terminal

  Language:C1

• ocxtal/libaw

  alignment writer

  Language:C2

• isovic/seqlib

  A codebase for sequence analysis projects. Highly experimental and in development.

  Language:HTML14

• bcgsc/NanoSim

  Nanopore sequence read simulator

  Language:Python24357

• marbl/canu

  A single molecule sequence assembler for genomes large and small.

  Language:C++660179

• ocxtal/udon

  BAM CIGAR / MD transcoder for compact on-memory representation and quick drawing

  Language:Rust20

• agshumate/Liftoff

  An accurate GFF3/GTF lift over pipeline

  Language:Python43754

• pola-rs/polars

  Dataframes powered by a multithreaded, vectorized query engine, written in Rust

  Language:Rust30.4k2k

• sourmash-bio/sourmash

  Quickly search, compare, and analyze genomic and metagenomic data sets.

  Language:Python47679

• rvaser/bioparser

  C++ library for parsing several formats in bioinformatics

  Language:C++95

• lh3/minigraph

  Sequence-to-graph mapper and graph generator

  Language:C41738

• shenwei356/biofast

  Benchmarking programming languages/implementations for common tasks in Bioinformatics

  3

• shenwei356/strobemers

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

  Language:Go14

• shenwei356/rush

  A cross-platform command-line tool for executing jobs in parallel

  Language:Go88265

• shenwei356/bio

  A lightweight and high-performance bioinformatics package in Golang

  Language:Go929

• shenwei356/kmcp

  Accurate metagenomic profiling && Fast large-scale sequence/genome searching

  Language:Go18113

• brentp/tiwih

  simple bioinformatics command-line (t)ools (i) (w)ished (i) (h)ad.

  Language:Nim44