ekquaye

ekquaye's Stars

• SarithaKodikara/LUPINE_manuscript

  Language:R4

• sanger-pathogens/assembly-stats

  Get assembly statistics from FASTA and FASTQ files

  Language:C++11522

• kassambara/rstatix

  Pipe-friendly Framework for Basic Statistical Tests in R

  Language:R44050

• facebookresearch/esm

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

  Language:Python3.1k616

• gem-pasteur/PanACoTA

  PANgenome with Annotations, COre identification, Tree and corresponding Alignments

  Language:Python718

• ebi-pf-team/interproscan

  Genome-scale protein function classification

  Language:Java29067

• hoelzer-lab/ribap

  A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs

  Language:HTML254

• veg/hyphy

  HyPhy: Hypothesis testing using Phylogenies

  Language:HyPhy20669

• cruizperez/FastAAI

  Language:Python104

• Soheil-A-Neshat/MicroEcoTools

  Theoretical Microbial Ecology Computational Tools

  Language:R5

• Matt-Schmitz/InvestiGut

  Lineage-specific microbial protein prediction facilitates exploration of protein ecology within the human gut.

  Language:Python12

• ncbi/rapt

  Read Assembly and Annotation Pipeline Tool

  5717

• jotech/gapseq

  Informed prediction and analysis of bacterial metabolic pathways and genome-scale networks

  Language:R15132

• Stevenleizheng/FEDKEA

  Language:Python2

• tttianhao/CLEAN

  CLEAN: a contrastive learning model for high-quality functional prediction of proteins

  Language:Python21641

• steineggerlab/foldseek

  Foldseek enables fast and sensitive comparisons of large structure sets.

  Language:C772100

• sortmerna/sortmerna

  SortMeRNA: next-generation sequence filtering and alignment tool

  Language:C++24068

• liaoherui/StrainScan

  High-resolution strain-level microbiome composition analysis tool based on reference genomes and k-mers

  Language:Python375

• geronimp/enrichM

  Toolbox for comparative genomics of MAGs

  Language:Python8122

• tyjo/coptr

  Accurate and robust inference of microbial growth dynamics from metagenomic sequencing

  Language:Python165

• ablab/quast

  Genome assembly evaluation tool

  Language:AMPL39576

• EBI-Metagenomics/mettannotator

  Language:Python374

• endixk/ezaai

  EzAAI - High Throughput Prokaryotic AAI Calculator

  Language:Java333

• donovan-h-parks/CompareM

  A toolbox for comparative genomics.

  Language:Python9419

• cmkobel/CompareM2

  🦠📇 Microbial genomes-to-report pipeline

  Language:Python523

• AlexOrlek/getNCBImetadata

  Retrieves NCBI metadata from nucleotide or biosample accession ids.

  Language:Python3

• ml4bio/Dense-Homolog-Retrieval

  Nature Biotechnology: Ultra-fast, sensitive detection of protein remote homologs using deep dense retrieval

  Language:Python591

• amplab/snap

  Scalable Nucleotide Alignment Program -- a fast and accurate read aligner for high-throughput sequencing data

  Language:C++28766

• arq5x/bedtools2

  bedtools - the swiss army knife for genome arithmetic

  Language:C922286

• meringlab/FlashWeave.jl

  Inference of microbial interaction networks from large-scale heterogeneous abundance data

  Language:Julia718