SIMBA: a Genome Assembly Project Management System
...a Web interface for managing assembly projects of bacterial genomes. SIMBA was created to assist bioinformaticians to assemble bacterial genomes sequenced with NextGeneration Sequencin...2012 days ago
1972 days ago
dnaPipeTE: a pipeline designed to find, annotate and quantify Transposable Elements
...find, annotate and quantify Transposable Elements in small samples of NGS datasets. It is very useful to quantify the proportion of TEs in newly sequenced genomes since it does not req...1755 days ago
LRSDAY: Long-read Sequencing Data Analysis for Yeasts
...ith small genome size and great biotechnological importance, the budding yeast, Saccharomyces cerevisiae, has many isolates currently being sequenced with long reads.1741 days ago
Shouji: a fast and efficient pre-alignment filter for sequence alignment
...software co-design and hardware acceleration to significantly reduce the execution time of short sequence alignment, a crucial step in analyzing sequenced genomes. We introduc...1672 days ago
ClinCNV: Detection of copy number changes in Germline/Trio/Somatic contexts in NGS data
...nce we estimate variances from the data). By "cohort" we mean samples sequenced with the same enrichment kit...eparate runs of ClinCNV). Of course it is better if your samples were sequenced within the same sequencing fa...1598 days ago
Phytozome v12.1: plant science community hub for accessing palnts genomic data
...science community a hub for accessing, visualizing and analyzing JGI-sequenced plant genomes, as well as selected genomes and datasets that have been sequenced elsewhere. As of release v12....1538 days ago
maftools : Summarize, Analyze and Visualize MAF Files
...Annotation Format (MAF) is being widely accepted and used to store somatic variants detected. The Cancer Genome Atlas Project has sequenced over 30 different cancers wit...1257 days ago
Hifiasm: a haplotype-resolved assembler for accurate Hifi reads
...PacBio Hifi reads. It can assemble a human genome in several hours and works with the California redwood genome, one of the most complex genomes sequenced so far. Hifiasm can produce p...1256 days ago
IVA: accurate de novo assembly of RNA virus genomes
IVA (Iterative Virus Assembler) designed specifically for read pairs sequenced at highly variable depth from RNA virus samples. We tested IVA on datasets from 140 sequenced samples from human immunodefi...1075 days ago