botond-sipos

botond-sipos's Stars

• althonos/pyhmmer

  Cython bindings and Python interface to HMMER3.

  Language:Cython12212

• nf-core/readsimulator

  A pipeline to simulate sequencing reads, such as Amplicon, Target Capture, Metagenome, and Whole genome data.

  Language:Nextflow276

• comprna/radian

  Nanopore direct RNA basecaller

  Language:Python112

• comprna/SUPPA

  SUPPA: Fast quantification of splicing and differential splicing

  Language:Python25861

• pangenome/odgi

  Optimized Dynamic Genome/Graph Implementation: understanding pangenome graphs

  Language:C++19139

• pypy/pypy

  PyPy is a very fast and compliant implementation of the Python language.

  Language:Python95855

• sjspielman/pyvolve

  Python library to simulate evolutionary sequence data

  Language:Python7823

• shenwei356/perfect-bioinformatic-tools

  What should perfect bioinformatic tools be like?

  1021

• abacus-gene/paml

  PAML is a program package for model fitting and phylogenetic tree reconstruction using DNA and protein sequence data. Please report only **technical issues** on this repository (e.g., compiling, programs abort or do not run at all, etc.). Problems with input data and general questions should be posted at https://groups.google.com/g/pamlsoftware?pli

  Language:C11420

• maxplanck-ie/snakepipes

  Customizable workflows based on snakemake and python for the analysis of NGS data

  Language:Python37985

• tanghaibao/jcvi

  Python library to facilitate genome assembly, annotation, and comparative genomics

  Language:Python742187

• dellytools/delly

  DELLY2: Structural variant discovery by integrated paired-end and split-read analysis

  Language:C++430136

• broadinstitute/gatk-sv

  A structural variation pipeline for short-read sequencing

  Language:Python17070

• microsoft/vscode

  Visual Studio Code

  Language:TypeScript163k28.8k

• gfx-rs/wgpu

  A cross-platform, safe, pure-Rust graphics API.

  Language:Rust12.3k901

• etetoolkit/ete

  Python package for building, comparing, annotating, manipulating and visualising trees. It provides a comprehensive API and a collection of command line tools, including utilities to work with the NCBI taxonomy tree.

  Language:Python779212

• lmdu/pyfastx

  a python package for fast random access to sequences from plain and gzipped FASTA/Q files

  Language:C26222

• TobyBaril/EarlGrey

  Earl Grey: A fully automated TE curation and annotation pipeline

  Language:Python13119

• pangenome/impg

  implicit pangenome graph

  Language:Rust385

• schneebergerlab/plotsr

  Tool to plot synteny and structural rearrangements between genomes

  Language:Python27728

• schneebergerlab/syri

  Synteny and Rearrangement Identifier

  Language:Cython32335

• biotite-dev/biotite

  A comprehensive library for computational molecular biology

  Language:Python633100

• Axect/Peroxide

  Rust numeric library with R, MATLAB & Python syntax

  Language:Rust50630

• ggonnella/gfapy

  Gfapy: a flexible and extensible software library for handling sequence graphs in Python

  Language:Python646

• google/gemma.cpp

  lightweight, standalone C++ inference engine for Google's Gemma models.

  Language:C++5.9k502

• google/gemma_pytorch

  The official PyTorch implementation of Google's Gemma models

  Language:Python5.2k502

• EvolBioInf/nwk

  Language:Go2

• EvolBioInf/andi

  ♥ Efficient Estimation of Evolutionary Distances

  Language:C4415

• shenwei356/csvtk

  A cross-platform, efficient and practical CSV/TSV toolkit in Golang

  Language:Go1k84

• 4ment/torchtree

  A probabilistic framework in PyTorch for phylogenetic models

  Language:Jupyter Notebook122