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[ICLR 2024] DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genome
Created
2023-06-23
35 commits to main branch, last one 3 months ago
Long read / genome alignment software
Created
2020-02-11
989 commits to master branch, last one 4 months ago
Python library to parse, format, validate, normalize, and map sequence variants. `pip install hgvs`
Created
2017-03-09
1,682 commits to main branch, last one 25 days ago
Randomly subsample sequencing reads or alignments
Created
2019-09-26
241 commits to main branch, last one 4 months ago
Earl Grey: A fully automated TE curation and annotation pipeline
Created
2021-09-30
649 commits to main branch, last one 5 days ago
Intervene: a tool for intersection and visualization of multiple genomic region and gene sets
Created
2017-01-14
209 commits to master branch, last one about a year ago
Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation with interactive reports and shiny app.
rgi
barrnap
phigaro
nextflow
pipeline
prophages
annotation
ko-annotation
genome-browser
genome-analysis
rrna-prediction
virulence-genes
virulence-factor
insertion-sequences
reproducible-research
methylation-annotation
mobile-genetic-elements
genomic-islands-prediction
prophage-sequences-prediction
antimicrobial-genes-annotation
Created
2019-10-23
796 commits to master branch, last one a day ago
Long-reads Gap-free Chromosome-scale Assembler
Created
2020-04-01
30 commits to master branch, last one 2 years ago
A tool for classifying prokaryote protein sequences into COG(Cluster of Orthologous Genes) functional category
Created
2022-03-18
92 commits to main branch, last one about a year ago
RawHash can accurately and efficiently map raw nanopore signals to reference genomes of varying sizes (e.g., from viral to a human genomes) in real-time without basecalling. Described by Firtina et al...
Created
2023-01-20
46 commits to main branch, last one 5 months ago
Bioinformatics on GCP, AWS or Azure
Created
2016-10-04
565 commits to master branch, last one 23 days ago
BLEND is a mechanism that can efficiently find fuzzy seed matches between sequences to significantly improve the performance and accuracy while reducing the memory space usage of two important applica...
Created
2021-12-12
35 commits to master branch, last one about a year ago
Snakemake workflow for the analysis of biosynthetic gene clusters across large collections of genomes (pangenomes)
Created
2021-09-13
812 commits to main branch, last one 3 months ago
visual analysis of your VCF files
Created
2022-10-27
69 commits to main branch, last one 2 years ago
A minimal genetic data explorer that processes all genetic information locally.
Created
2023-05-22
35 commits to main branch, last one about a year ago
zgtools: A pipeline that allows for the convenient acquisition of T2T (Telomere-to-Telomere) genomes.
Created
2024-05-20
334 commits to master branch, last one 2 months ago