bpRNA: large-scale automated annotation and analysis of RNA secondary structure
bpRNA, a novel annotation tool capable of parsing RNA structures, including complex pseudoknot-containing RNAs, to yield an objective, precise, compact, unambiguous, e...2171 days ago
2166 days ago
SALSA: A tool to scaffold long read assemblies with Hi-C
...Walenz, B.P., Schmitt, A., Selvaraj, S., Pop, M., Phillippy, A.M. and Koren, S., 2018. Integrating Hi-C links with assembly graphs for chromosome-scale assembly. bioRxiv, p.261149 L...2148 days ago
Indexcov: fast coverage quality control for whole-genome sequencing
indexcov, an efficient estimator of whole-genome sequencing coverage to rapidly identify samples with aberrant coverage profiles, reveal large-scale chromosomal anomalies, recognize...2073 days ago
2016 days ago
genoPlotR - plot gene and genome maps project!
...d annotations to all the lines Create smart, automatic annotations for genomes, based on gene names Add a user-generated tree Add a global scale or a scale to each line Use user-define...1968 days ago
Versatile genome assembly evaluation with QUAST-LG
QUAST-LG is an extension of QUAST intended for evaluating large-scale genome assemblies (up to mammalian-size). QUAST-LG is included in the QUAST package starti...1958 days ago
HipSTR: Haplotype inference and phasing for Short Tandem Repeats
...r, it accomplishes this by: Learning locus-specific PCR stutter models using an EM algorithm Mining candidate STR alleles from population-scale sequencing data Employing a...1882 days ago
OMTools: a software package for visualizing and processing optical mapping data
OMTools, an efficient and intuitive data processing and visualization suite to handle and explore large-scale optical mapping profiles. OMTools includes modules for visualization (OM...1861 days ago
Flye: Fast and accurate de novo assembler for single molecule sequencing reads
...produced by PacBio and Oxford Nanopore Technologies. It is designed for a wide range of datasets, from small bacterial projects to large mammalian-scale assemblies. The package repre...1856 days ago