peterdfields

peterdfields's Stars

• jgbit/vuda

  VUDA is a header-only library based on Vulkan that provides a CUDA Runtime API interface for writing GPU-accelerated applications.

  Language:C++876351835

• raghavan/PdfGptIndexer

  RAG based tool for indexing and searching PDF text data using OpenAI API and FAISS (Facebook AI Similarity Search) index, designed for rapid information retrieval and superior search accuracy.

  Language:Python6647630

• VPetukhov/ggrastr

  Raster geoms for ggplot2

  Language:R21961818

• mheinzinger/ProstT5

  Bilingual Language Model for Protein Sequence and Structure

  Language:Jupyter Notebook20512816

• lh3/pangene

  Constructing a pangenome gene graph

  Language:C17871810

• quinlan-lab/bedder-rs

  an API for intersections of genomic data

  Language:Rust74450

• chenlianfu/geta

  Language:Perl7353725

• sanger-pathogens/Fastaq

  Python3 scripts to manipulate FASTA and FASTQ files

  Language:Python7019921

• citiususc/BigSeqKit

  BigSeqKit: a parallel Big Data toolkit to process FASTA and FASTQ files at scale

  Language:Go56654

• rwdavies/QUILT

  QUILT: Low coverage whole genome sequence imputation with large reference panels

  Language:R5564311

• raw-lab/MetaCerberus

  Python code for versatile Functional Ontology Assignments for Metagenomes searching via Hidden Markov Model (HMM) with environmental focus of shotgun metaomics data

  Language:HTML535277

• balabanmetin/uDance

  Language:Java432107

• at-cg/PanAligner

  Long read aligner for cyclic and acyclic pangenome graphs

  Language:C36444

• jeffersonfparil/compare_genomes

  A comparative genomics workflow using Nextflow, conda, Julia and R

  Language:Nextflow353217

• EichlerLab/svpop

  Variant annotation and merging pipeline

  Language:Python303126

• clairemcwhite/vcmsa

  Language:Python29184

• KULL-Centre/_2022_functional-sites-cagiada

  Language:Jupyter Notebook21133

• DessimozLab/matreex

  Language:HTML16902

• Kuanhao-Chao/Wheeler_Graph_Toolkit

  🔎 wheeler graph recognition algorithm, visualization and generation

  Language:C++15100

• lorinanthony/MAPIT

  Code and Tutorials for Running the MArginal ePIstasis Test (MAPIT)

  Language:C++14113

• seanrjohnson/esmologs

  Local homology search powered by ESM-2 language model, foldseek, hhsuite, and hmmer.

  Language:Jupyter Notebook13130

• clockor2/clockor2

  Inferring global and local strict molecular clocks using root-to-tip regression

  Language:TypeScript111800

• richarddurbin/phynder

  likelihood calculations over a tree to support ancient DNA Y chr analysis and more

  Language:C10120

• Shao-Group/subseqhash

  Language:C++8000

• DataCenter-of-ICMM/MOMS

  A Multi-channel Optical Map Scaffolder

  Language:Perl7311

• ekg/hamming-fasta

  brute force online sequence similarity search

  Language:Rust720

• lsbnb/locla

  LOCLA: Local Optimization for Chromosome-Level Assembly

  6202

• iganna/migadmi

  Language:Python3200

• JohannaTrost/seqsharp

  Sequence evolution Simulations Have A Real(ism) Problem - an accurate discriminator of simulated and empirical multiple sequence alignments using CNNs.

  Language:Jupyter Notebook3210

• pascalangst/Angst_etal_2023_G3

  Scripts used in Angst et al. (2023)

  Language:Shell1101