Results for "structural variation"
Bookmarks
The Genetics, Genomics & Bioinformatics Department (GBBD...how genetic processes evolve to generate genetic variation in populations of organisms, and the effects on the patterning of variation within and between population...2080 days ago
Ensembl Variation - Calculated variant consequences
For each variant that is mapped to the reference genome, we identify all overlapping Ensembl transcripts. We then use a rule-based approach to predict the effects that e...2076 days ago
nQuire: a statistical framework for ploidy estimation using next generation sequencing
nQuire provides a statistical framework to study organisms with intraspecific variation in ploidy. nQuire is likely t...2051 days ago
- This is a tool for detecting structural variations using soft-clipping information From SAM files. https://github.com/shinout/clipcrop
2051 days ago
Biotite: A general framework for computational biology
The package is open source and freely available at GitHub (https://github.com/biotite-dev/biotite). This package is s... and structure modules serve for the analysis of sequence and structura...1977 days ago
- ClipCrop for detecting SVs with single-base resolution using soft-clipping information. A soft-clipped sequence is an unmatched fragment in a partially mapped read. To a...
1943 days ago
SvABA: Genome-wide detection of structural variants and indels by local assembly
SvABA is a method for detecting structural variants in sequencing data using genome-wide local assembly. Under the hood, SvABA uses a custom implementation of SGA&nb...1942 days ago
NxRepair: error correction in de novo assemblies using Nextera Mate Pair Reads
NxRepair is a python module that automatically detects large structural errors in de novo assemblies using Nextera mate pair reads. The decector will break a contig at the site of an id...1939 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...1932 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...1879 days ago
