SilasK's Stars
geekan/MetaGPT
🌟 The Multi-Agent Framework: First AI Software Company, Towards Natural Language Programming
ggerganov/whisper.cpp
Port of OpenAI's Whisper model in C/C++
meta-llama/llama-recipes
Scripts for fine-tuning Meta Llama with composable FSDP & PEFT methods to cover single/multi-node GPUs. Supports default & custom datasets for applications such as summarization and Q&A. Supporting a number of candid inference solutions such as HF TGI, VLLM for local or cloud deployment. Demo apps to showcase Meta Llama for WhatsApp & Messenger.
BuilderIO/micro-agent
An AI agent that writes (actually useful) code for you
mwouts/itables
Pandas DataFrames as Interactive DataTables
cocogitto/cocogitto
The Conventional Commits toolbox
trevismd/statannotations
add statistical significance annotations on seaborn plots. Further development of statannot, with bugfixes, new features, and a different API.
metagenome-atlas/atlas
ATLAS - Three commands to start analyzing your metagenome data
markfairbanks/tidypolars
Tidy interface to polars
jenniferlu717/KrakenTools
KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files
epfl-dlab/aiflows
🤖🌊 aiFlows: The building blocks of your collaborative AI
ClaudioZandonella/trackdown
R package for collaborative writing and editing of R Markdown (or Sweave) documents in Google Docs.
YuLab-SMU/MicrobiotaProcess
:microbe: A comprehensive R package for deep mining microbiome
stefpeschel/NetCoMi
Network construction, analysis, and comparison for microbial compositional data
inciteful-xyz/inciteful-web
The frontend for Inciteful.xyz.
joshuacnf/Ctrl-G
Wytamma/snk
Snakemake workflow management system and CLI generation tool
liaoherui/StrainScan
High-resolution strain-level microbiome composition analysis tool based on reference genomes and k-mers
tymor22/protein-vec
Repository for Protein-Vec, a protein embedding mixture of experts model
zreitz/multismash
A workflow and scripts for large-scale antiSMASH analyses
bobheadxi/readable
👓 Opinionated Markdown formatter, featuring semantic line breaks
admk/sembr
⚡️ A semantic line breaker that truly breaks lines semantically. Powered by Transformers.
ekg/loq
talk to type
Gibbons-Lab/scfa_predictions
Microbial community-scale metabolic modeling predicts personalized short-chain-fatty-acid production profiles in the human gut
zellerlab/cayman
audy/esrapgra
The opposite of argparse
bacpop/cgt
Calculate sensible core gene thresholds for metagenomic data
fredeBio/REALPHY
REALPHY - The Reference sequence Alignment based Phylogeny builder is a free online pipeline that can infer phylogenetic trees from whole genome sequence data. The user only has to provide a small number of reference genomes in either FASTA or Genbank format (contigs or fully sequenced genomes) as well as a number of other query genomes which can be in FASTQ (short reads), FASTA or Genbank format. All provided sequences (references and queries) will then be mapped to each of the references via bowtie2. From these alignments multiple sequence alignments will be reconstructed from which phylogenetic trees are inferred via PhyML. The alignments, tree files and information on SNPs and deleted sites will be available for download after the program has finished. Furthermore the user has the option to combine individual reference alignments by ticking the merge box. This will combine different reference genome alignments and hence increase the quality of the inferred phylogeny. However, this option is very time and RAM intensive.
rotary-genomics/rotary
Assembly/annotation workflow for Nanopore-based microbial genome data containing circular DNA elements.
SarahBeecroft/Intro2HPC