12 results found Sort:

biocommons
hgvs biocommons
94
233
apache-2.0
20
Python library to parse, format, validate, normalize, and map sequence variants. `pip install hgvs`
genomics variation sequencing bioinformatics genome-analysis variant-analysis
Created 2017-03-09
1,656 commits to main branch, last one 2 days ago
marbl
Winnowmap marbl
21
229
other
15
Long read / genome alignment software
pacbio nanopore genome-analysis
Created 2020-02-11
987 commits to master branch, last one 13 days ago
MAGICS-LAB
DNABERT_2 MAGICS-LAB
48
205
apache-2.0
9
[ICLR 2024] DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genome
dna covid genome splice dataset promoter promoters splice-site dna-training dna-processing language-model genome-analysis promoter-analysis transcription-factors transcription-factor-binding transcription-factor-binding-site
Created 2023-06-23
25 commits to main branch, last one 16 days ago
mbhall88
rasusa mbhall88
17
195
mit
7
Randomly subsample sequencing reads
bam rust fasta fastq random coverage alignment downsample subsampling bioinformatics genome-analysis
Created 2019-09-26
225 commits to main branch, last one about a month ago
asntech
intervene asntech
28
132
other
6
Intervene: a tool for intersection and visualization of multiple genomic region and gene sets
pyton bedtools heatmaps intersection venn-diagram dna-sequences visualization genome-analysis
Created 2017-01-14
209 commits to master branch, last one 8 months ago
TobyBaril
EarlGrey TobyBaril
18
124
other
5
Earl Grey: A fully automated TE curation and annotation pipeline
genomics bioinformatics te-annotations genome-analysis genome-annotation transposable-elements
Created 2021-09-30
487 commits to main branch, last one 12 days ago
fmalmeida
bacannot fmalmeida
9
96
gpl-3.0
4
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
740 commits to master branch, last one 3 months ago
ganlab
GALA ganlab
16
67
mit
4
Long-reads Gap-free Chromosome-scale Assembler
pacbio nanopore long-reads gap-filling scaffolding genome-analysis genome-assembly
Created 2020-04-01
30 commits to master branch, last one about a year ago
lynnlangit
TeamTeri lynnlangit
17
52
unknown
11
Bioinformatics on GCP, AWS or Azure
aws gcp gatk azure variants variant-calls bioinformatics cancer-genomics genome-analysis genome-sequencing genomics-analysis
Created 2016-10-04
561 commits to master branch, last one 3 days ago
moshi4
COGclassifier moshi4
6
42
mit
2
A tool for classifying prokaryote protein sequences into COG(Cluster of Orthologous Genes) functional category
cog python protein genomics visualization bioinformatics genome-analysis microbial-genomics functional-analysis comparative-genomics functional-annotation
Created 2022-03-18
92 commits to main branch, last one 7 months ago
CMU-SAFARI
RawHash CMU-SAFARI
5
39
gpl-3.0
8
RawHash is the first mechanism that can accurately and efficiently map raw nanopore signals to large reference genomes (e.g., a human reference genome) in real-time without using powerful computation...
rawhash seeding nanopore raw-signal hash-tables read-mapping segmentation contamination nanopore-data bioinformatics nanopore-reads event-detection genome-analysis nanopore-minion nanopore-sequencing relative-abundances nanopore-analysis-pipeline raw-nanopore-signal-analysis
Created 2023-01-20
36 commits to main branch, last one about a month ago
brandonsaldan
codex brandonsaldan
1
28
other
3
A minimal genetic data explorer that processes all genetic information locally.
dna snpedia genetics bioinformatics genome-analysis
Created 2023-05-22
35 commits to main branch, last one 7 months ago