peterdfields

peterdfields's Stars

• opendatalab/MinerU

  A high-quality tool for convert PDF to Markdown and JSON.一站式开源高质量数据提取工具，将PDF转换成Markdown和JSON格式。

  Language:Python23k1197881.7k

• karpathy/nn-zero-to-hero

  Neural Networks: Zero to Hero

  Language:Jupyter Notebook12.6k297341.7k

• evolutionaryscale/esm

  Language:Python1.5k24119173

• knowsuchagency/pdf-to-podcast

  Convert any PDF into a podcast episode!

  Language:Python638135267

• steineggerlab/foldmason

  Multiple Protein Structure Alignment at Scale with FoldMason

  Language:C14651214

• thegenemyers/FASTGA

  Pairwise whole genome aligner

  Language:C1421036

• williamcotton/guish

  A GUI for constructing and executing Unix pipelines

  Language:TypeScript131364

• IndexThePlanet/Logan

  Logan Unitigs and Contigs

  1118133

• lh3/ropebwt3

  BWT construction and search

  Language:C106643

• kcleal/dysgu

  Toolkit for calling structural variants using short or long reads

  Language:Cython10039012

• daewoooo/SVbyEye

  Language:R744116

• brentp/vcfexpress

  expressions on VCFs

  Language:Rust65201

• JensUweUlrich/Taxor

  Fast and space-efficient taxonomic classification of long reads

  Language:C++432132

• piosierra/pantera

  Identification of transposable element families from pangenome polymorphisms

  Language:Slash43341

• Gaius-Augustus/Tiberius

  deep learning gene finder

  Language:Python418103

• google/deeppolisher

  Transformer-based sequence correction method for genome assembly polishing

  Language:Jupyter Notebook40443

• RolandFaure/Hairsplitter

  Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.

  Language:C++34390

• micahvista/VACmap

  VACmap: a long-read aligner specifically designed for complex structural variation discovery

  Language:Python30180

• lucanest/Phyloformer

  Fast and accurate Phylogeny estimation with self-attention Networks

  Language:Python26345

• Gaius-Augustus/learnMSA

  Learning and Aligning Large Protein Families with support of protein language models.

  Language:Jupyter Notebook193144

• hannesbecher/shiny-k-mers

  Tetemer, an R package and Shiny app for interactively fitting population parameters to k-mer spectra of diploids, triploids, and tetraploids (allo and auto)

  Language:R13381

• WGLab/LongReadSum

  Language:C++137292

• ekg/loq

  talk to type

  Language:Shell9211

• avaughn271/CLUES2

  The GitHub for CLUES2, a method for inferring and evaluating evidence for selection.

  Language:Python8150

• wf8/homologizer

  Homologizer: phasing gene copies into polyploid subgenomes

  Language:R8121

• miramastoras/PHARAOH

  PHasing Reads in Areas Of Homozygosity

  Language:WDL710

• courtrun/HLA_finngen

  Language:R410

• vgteam/long-read-giraffe-experiments

  Experimental materials for testing the long-read mapping abilities of vg giraffe

  Language:Python4563

• EgorLappo/slim-runner

  rust-based wrapper for SLiM population genetics simulation engine

  Language:Rust3100

• KrisChristensen/HomeologousRegionIdentification

  Language:Python20