elizabethmcd

elizabethmcd's Stars

• facebookresearch/esm

  Evolutionary Scale Modeling (esm): Pretrained language models for proteins

  Language:Python3.2k65320626

• RosettaCommons/RFdiffusion

  Code for running RFdiffusion

  Language:Python1.7k40193323

• kyclark/command-line-rust

  Code for Command-Line Rust (O'Reilly, 2024, ISBN 9781098109417)

  Language:Rust1.5k1319251

• mlr-org/mlr3

  mlr3: Machine Learning in R - next generation

  Language:R9312962385

• metagenome-atlas/atlas

  ATLAS - Three commands to start analyzing your metagenome data

  Language:Python3701542698

• saketkc/pysradb

  Package for fetching metadata and downloading data from SRA/ENA/GEO

  Language:Python3101313250

• marbl/verkko

  Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and Oxford Nanopore ultra-long reads.

  Language:Python2891727528

• moshi4/pyGenomeViz

  A genome visualization python package for comparative genomics

  Language:Python27034222

• RosettaCommons/RFDesign

  Protein hallucination and inpainting with RoseTTAFold

  Language:Python237135367

• PacificBiosciences/pb-metagenomics-tools

  Tools and pipelines tailored to using PacBio HiFi Reads for metagenomics

  Language:HTML167136134

• hillerlab/TOGA

  TOGA (Tool to infer Orthologs from Genome Alignments): implements a novel paradigm to infer orthologous genes. TOGA integrates gene annotation, inferring orthologs and classifying genes as intact or lost.

  Language:Python151915623

• conchoecia/odp

  oxford dot plots

  Language:Python1306809

• rifdock/rifdock

  Rifdock Library for Conformational Search

  Language:C++12974640

• EBI-Metagenomics/emg-viral-pipeline

  VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies

  Language:Python12377116

• rezacsedu/XAI-for-bioinformatics

  Explainable AI for Bioinformatics

  Language:Jupyter Notebook1154017

• waynerv/cookiecutter-pypackage

  A tool for creating skeleton python project, built with popular develop tools and conform to best practice.

  Language:Python1102270

• steineggerlab/Metabuli

  Metabuli: specific and sensitive metagenomic classification via joint analysis of DNA and amino acid.

  Language:C++1095309

• GaetanBenoitDev/metaMDBG

  MetaMDBG: a lightweight assembler for long and accurate metagenomics reads.

  Language:C++915183

• fulcrumgenomics/fqgrep

  Grep for FASTQ files

  Language:Rust9012144

• lh3/srf

  SRF: Satellite Repeat Finder

  Language:TeX825176

• tashapiro/intro-observable

  This is an introductory workshop hosted by R-Ladies Philadelphia. Participants will sample how to use Observable Notebooks, Observable Plot, and combine Observable with R Quarto.

  Language:HTML41104

• broadinstitute/str-analysis

  Scripts and utilities related to analyzing short tandem repeats (STRs).

  Language:Python29788

• hgbrian/biocolabs

  a collection of colabs useful for molecular biology

  Language:Jupyter Notebook26412

• ThomasCMcLean/LazyAF

  Code for LazyAF pipeline

  Language:Shell21312

• nf-core/genomeannotator

  Pipeline for the identification of (coding) gene structures in draft genomes.

  Language:Nextflow18156912

• Zenleaf/entrez-rs

  A Rust wrapper around the Entrez API. Helps you access the Entrez API using idiomatic Rust. It also provides tools to parse the XML results from Entrez.

  Language:Rust17423

• drboothtj/getphylo

  a python package for automated generation of phylogenetic trees from genbank files

  Language:Python14231

• AlexsLemonade/scpca-nf

  scpca-nf is the Nextflow workflow for processing Single-cell Pediatric Cancer Atlas Portal data

  Language:R1253592

• UBC-MDS/hueniverrrsity

  DSCI 524 Group 16 (Team Alan Turing) R package

  Language:R53

• patriciatran/MAG_pipeline

  🐍 🧬 Turning my metagenomic MAG (metagenome-assembled genome) pipeline into a snakemake pipeline for increased reproducibility and scalability.

  Language:Python3100