13 results found Sort:

bcgsc
NanoSim bcgsc
57
242
other
18
Nanopore sequence read simulator
genome simulator transcriptome oxford-nanopore nanopore-sequencing
Created 2015-11-05
360 commits to master branch, last one a day ago
nf-core
mag nf-core
110
216
mit
160
Assembly and binning of metagenomes
binning nf-core assembly nanopore nextflow pipeline workflow annotation metagenomes metagenomics bioinformatics nanopore-sequencing long-read-sequencing
Created 2018-05-22
2,418 commits to master branch, last one 7 days ago
GoekeLab
bambu GoekeLab
23
188
gpl-3.0
7
Reference-guided transcript discovery and quantification for long read RNA-Seq data
r bambu rna-seq nanopore long-reads bioconductor transcriptomics rna-seq-analysis nanopore-sequencing transcript-quantification transcript-reconstruction
Created 2020-02-07
2,159 commits to devel branch, last one 13 days ago
GoekeLab
xpore GoekeLab
23
137
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 11 months ago
bioinfomaticsCSU
deepsignal bioinfomaticsCSU
21
111
gpl-3.0
3
Detecting methylation using signal-level features from Nanopore sequencing reads
tensorflow epigenetics methylation bioinformatics nanopore-sequencing
Created 2018-12-11
209 commits to master branch, last one about a year ago
bcgsc
RNA-Bloom bcgsc
7
96
other
11
:hibiscus: reference-free transcriptome assembly for short and long reads
rna-seq bulk-rna-seq denovo-assembly pacbio-sequencing bioinformatics-tool nanopore-sequencing single-cell-rna-seq
Created 2018-06-30
1,879 commits to master branch, last one 9 months ago
biocorecrg
master_of_pores biocorecrg
16
93
mit
9
Nextflow pipeline for analysis of direct RNA Nanopore reads
docker nextflow singularity nextflow-pipeline nanopore-sequencing nanopore-analysis-pipeline
Created 2019-10-10
298 commits to v3.0 branch, last one about a month ago
bcgsc
arcs bcgsc
16
91
gpl-3.0
25
🌈Scaffold genome sequence assemblies using linked or long read sequencing data
graph genome science scaffold assembler 10xgenomics c-plus-plus pacbio-data bioinformatics oxford-nanopore nanopore-sequencing
Created 2016-06-06
272 commits to master branch, last one 15 hours ago
nf-core
bacass nf-core
41
60
mit
150
Simple bacterial assembly and annotation pipeline
denovo nf-core assembly nanopore nextflow pipeline workflow denovo-assembly genome-assembly hybrid-assembly bacterial-genomes nanopore-sequencing
Created 2019-01-31
633 commits to master branch, last one 4 months ago
PengNi
deepsignal-plant PengNi
12
57
gpl-3.0
4
Detecting methylation using signal-level features from Nanopore sequencing reads of plants
plant pytorch methylation bioinformatics nanopore-sequencing
Created 2019-11-19
146 commits to master branch, last one 4 months ago
CMU-SAFARI
RawHash CMU-SAFARI
5
46
gpl-3.0
8
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...
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
46 commits to main branch, last one 14 days ago
WGLab
DeepMod2 WGLab
2
35
mit
4
DNA 5mC methylation detection from Dorado or Guppy basecalled Oxford Nanopore reads
methylation deep-learning nanopore-sequencing
Created 2022-05-02
82 commits to main branch, last one 2 months ago
sirselim
guppy_parameter_optimiser sirselim
4
31
gpl-3.0
3
A small bash script that automates sweeping Guppy parameters in an attempt to optimise basecalling rate
gpu guppy basecalling optimisation nanopore-sequencing
Created 2022-02-09
28 commits to main branch, last one 2 years ago