1941 days ago
nQuire: A statistical framework for ploidy estimation using NGS short-read data
nQuire implements a set of commands to estimate ploidy level of individuals from species, where recent polyploidization occurred and intraspecific ploidy variation is observed. Specifically, nQ...1921 days ago
MACSE: Multiple Alignment of Coding SEquences Accounting for Frameshifts and Stop Codons
MACSE aligns coding NT sequences with respect to their AA translation while allowing NT sequences to contain multiple...on-functional sequences (pseudogenes) without disrupting the underlying codon structure...1903 days ago
DISTRUCT: a program for the graphical display of population structure
distruct is a program that can be used to graphically display results produced by the genetic clustering program structure or by other similar prog...icients in the same form as used in "Genetic structure...1869 days ago
ChIPulate: A Python3 framework to simulate read counts in a ChIP-seq experiment
ChIP-seq simulation pipeline, ChIPulate, we assess the impact of various biological and experimental sources of variation on several outcomes of a ChIP...1868 days ago
1676 days ago
1621 days ago
phyloXML: XML for evolutionary biology and comparative genomics
phyloXML (example) is an XML language designed to describe phylogenetic trees (or networks) and associ...loXML, extensibility as well as domain specific applications are ensured. The structure...1610 days ago
HaploTypo: a variant-calling pipeline for phased genomes
...genetic variant calling tools do not explicitly account for haplotype structure. Here, we present HaploTypo, a pipeline tailored to resolve haplotypes in genetic variation analyses. HaploTypo infers th...1599 days ago
1559 days ago