2224 days ago
2219 days ago
MECAT: fast mapping, error correction, and de novo assembly for single-molecule sequencing reads
MECAT is an ultra-fast Mapping, Error Correction and de novo Assembly Tools for single molecula sequencing (SMRT) reads. MECAT employs novel alignment and error correct...2244 days ago
LACHESIS: Genome Assembly with Hi-C-based Contact Probability Maps (LACHESIS)
...umentation and a user's guide are available at: http://shendurelab.github.io/LACHESIS. Manuscript desc...0.1038/nbt.272. PubMed PMID: 24185095. http://shendurelab.github.io/LACHESIS/2241 days ago
bpRNA: large-scale automated annotation and analysis of RNA secondary structure
...s written in perl and requires the Graph perl module. Several additional scripts for analysis are included. The source code is available at http://github.com/hendrixlab/bpRNA.2232 days ago
SALSA: A tool to scaffold long read assemblies with Hi-C
..., 2018. Integrating Hi-C links with assembly graphs for chromosome-scale assembly. bioRxiv, p.261149 Link For any queries, please either ask on github issue page or send an email t...2209 days ago
minimap2: A versatile pairwise aligner for genomic and spliced nucleotide sequences
git clone https://github.com/lh3/minimap2 cd minimap2 && make # long sequences against a reference genome ./minimap2 -a test/MT-human.fa test/MT-orang.fa > test.sa...2204 days ago
AfterQC: Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data
...much faster. The new tool is called fastp and can be found at: https://github.com/OpenGene/fastp . If you prefer a C++ based tool, please use fastp instead. https://github.com/OpenGene/AfterQC...2195 days ago
JBrowse: Embeddable genome browser built completely with JavaScript and HTML5
...nd Windows using the Electron platform Highly extensible plugin architecture, with a large plugin registry of existing examples here https://gmod.github.io/jbrowse-registry https:...2195 days ago
ASAR: Advanced metagenomic Sequence Analysis in R
...ased on KEGG orthology based upon MG-RAST annotation results is available. To read the manual, please click the link https://askarbek-orakov.github.io/ASAR/2185 days ago