24 results found Sort:

a-r-j
graphein a-r-j
132
1.0k
mit
18
Protein Graph Library
dgl rna python protein pytorch interactome ppi-networks deep-learning interactomics bioinformatics drug-discovery protein-design protein-data-bank protein-structure pytorch-geometric structural-biology computational-biology graph-neural-networks geometric-deep-learning gene-regulatory-networks
Created 2019-08-28
807 commits to master branch, last one about a month ago
nf-core
rnaseq nf-core
709
931
mit
158
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
rna nf-core rna-seq nextflow pipeline workflow
Created 2018-03-29
5,670 commits to master branch, last one about a month ago
Lattice-Automation
seqviz Lattice-Automation
53
247
mit
13
a JavaScript DNA, RNA, and protein sequence viewer
dna rna igem vector biology plasmid protein synthetic-biology
Created 2019-04-24
767 commits to develop branch, last one about a month ago
tseemann
barrnap tseemann
40
229
gpl-3.0
10
:microscope: :leo: Bacterial ribosomal RNA predictor
rna rrna hmmer rnammer hmm-model ribosomal annotations
Created 2013-08-03
74 commits to master branch, last one 6 years ago
nextstrain
nextclade nextstrain
61
219
mit
20
Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement
dna rna ncov clade covid virus clades strain covid19 science covid-19 neherlab research influenza sequences nextstrain sars-cov-2 sequencing coronavirus next-generation-sequencing
Created 2020-06-12
6,428 commits to master branch, last one 21 days ago
PacificBiosciences
IsoSeq PacificBiosciences
62
194
bsd-3-clause-clear
20
Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
rna pacbio isoforms discovery polishing clustering
Created 2018-03-05
85 commits to master branch, last one about a month ago
fjossinet
RNArtist fjossinet
10
158
other
6
With RNArtist, you construct a collection of RNA structures that can be gathered into RNA families, projects,...
rna java kotlin rna-structure bioinformatics javafx-application rna-secondary-structure
Created 2020-04-24
193 commits to master branch, last one about a year ago
mmagnus
rna-tools mmagnus
43
153
gpl-3.0
10
🔧rna-tools: a toolbox to analyze sequences, structures and simulations of RNA (and more) used by RNA CASP, RNA PUZZLES, and me ;-) docs @ http://rna-tools.rtfd.io web @ http://rna-tools.online
pdb rna python simrna rna-pdb rosetta rna-tools rna-puzzle rna-structure bioinformatics
Created 2015-04-18
3,022 commits to master branch, last one 4 days ago
nf-core
rnafusion nf-core
98
145
mit
151
RNA-seq analysis pipeline for detection of gene-fusions
rna fusion nf-core rna-seq nextflow pipeline workflow gene-fusion fusion-genes
Created 2018-10-05
1,912 commits to master branch, last one 7 months ago
GoekeLab
xpore GoekeLab
23
138
mit
9
Identification of differential RNA modifications from nanopore direct RNA sequencing
rna python rna-seq genomics nanopore modification transcriptomics machine-learning rna-modifications nanopore-sequencing
Created 2020-01-06
367 commits to master branch, last one about a year ago
bgruening
galaxytools bgruening
234
116
mit
24
:microscope::books: Galaxy Tool wrappers
rna tools galaxy wrapper galaxyproj hacktoberfest cheminformatics
Created 2012-11-30
6,626 commits to master branch, last one 21 hours ago
jaswindersingh2
SPOT-RNA jaswindersingh2
33
96
mpl-2.0
6
RNA Secondary Structure Prediction using an Ensemble of Two-dimensional Deep Neural Networks and Transfer Learning.
rna resnet lone-pairs tensorflow pdb-dataset bprna-dataset deep-learning rna-structure ensemble-model machine-learning transfer-learning canonical-base-pairs rna-structure-motifs blstm-neural-networks multiplets-base-pairs pseudoknot-base-pairs noncanonical-base-pairs rna-secondary-structure rna-structural-analysis rna-secondary-structure-prediction
Created 2019-06-04
162 commits to master branch, last one 2 years ago
mozack
abra2 mozack
9
92
mit
17
ABRA2
dna ngs rna abra indels realigner splice-junctions
Created 2016-08-25
1,383 commits to master branch, last one 3 years ago
Lattice-Automation
seqfold Lattice-Automation
12
85
mit
7
nucleic acid folding
dna rna folding dna-folding rna-folding structure-prediction dna-structure-prediction rna-structure-prediction
Created 2019-11-25
104 commits to main branch, last one 4 months ago
lbcb-sci
RiNALMo lbcb-sci
10
73
apache-2.0
4
RiboNucleic Acid (RNA) Language Model
rna biology rna-seq bioinformatics language-model foundation-model structural-biology secondary-structure splice-site-prediction rna-secondary-structure rna-structure-prediction
Created 2024-02-28
35 commits to main branch, last one 22 days ago
r2dt-bio
R2DT r2dt-bio
11
65
apache-2.0
8
Visualise RNA secondary structure in consistent, reproducible and recognisable layouts
rna python3 visualisation bioinformatics rna-secondary-structure
Created 2018-08-14
951 commits to main branch, last one 2 months ago
nf-core
hlatyping nf-core
30
63
mit
158
Precision HLA typing from next-generation sequencing data
dna hla rna nf-core nextflow optitype pipeline workflow hla-typing immunology personalized-medicine
Created 2018-07-11
430 commits to master branch, last one 2 years ago
genome
bfx-workshop genome
19
59
unknown
20
A course on genomics and bioinformatics from WU
dna rna scrna rnaseq atacseq biology chipseq dataviz analysis genomics alignment sequencing single-cell bioinformatics
Created 2020-08-19
594 commits to master branch, last one 7 days ago
KirillKryukov
naf KirillKryukov
6
56
zlib
4
Nucleotide Archival Format - Compressed file format for DNA/RNA/protein sequences
dna rna fasta fastq protein compression file-format
Created 2018-12-11
226 commits to master branch, last one 3 years ago
adnaniazi
tailfindr adnaniazi
16
53
gpl-3.0
3
An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
r rna cdna nanopore bioinformatics
Created 2018-07-30
255 commits to master branch, last one 8 months ago
yikunpku
RNA-MSM yikunpku
4
51
mit
2
Nucleic Acids Research 2024：RNA-MSM model is an unsupervised RNA language model based on multiple sequences that outputs both embedding and attention map to match different types of downstream tasks.
rna bioinformatics language-model rna-structure-prediction
Created 2023-01-05
37 commits to master branch, last one 4 months ago
nf-core
rnasplice nf-core
28
47
mit
152
rnasplice is a bioinformatics pipeline for RNA-seq alternative splicing analysis
rna nf-core rna-seq nextflow pipeline splicing workflow alternative-splicing
Created 2022-08-22
430 commits to master branch, last one 6 months ago
nf-core
rnavar nf-core
32
38
mit
112
gatk4 RNA variant calling pipeline
rna gatk4 rnaseq nf-core worflow nextflow pipeline workflow variant-calling
Created 2021-05-12
283 commits to master branch, last one 2 years ago
chenkenbio
SpliceBERT chenkenbio
5
30
bsd-3-clause
4
Primary RNA sequence model
rna language-model
Created 2023-01-31
117 commits to main branch, last one 6 months ago