Caretta – A multiple protein structure alignment and feature extraction suite
Caretta – a multiple protein structure alignment and feature extraction suite Caretta, a multiple structure alignment suite meant for hom...application and additionally outputs an aligned structure...1233 days ago
Applied Computational Genomics Course at UU: Spring 2020
...sis and interpretation of experimental genomics data. It will be structured as a series of lectures cove...ored including sequence alignment, the identification of genetic variation, structural variation, and ChIP-seq and RNA-seq ana...1228 days ago
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odgi: optimized dynamic genome/graph implementation
odgi provides an efficient and succinct dynamic DNA sequence graph model, as well as a host of algorithms that a...genomes with minimal overheads. odgi implements a dynamic data structure...822 days ago
Smudgeplot: Inference of ploidy and heterozygosity structure using whole genome sequencing data
This tool extracts heterozygous kmer pairs from kmer count databases and performs gymnastics with them. We are able to disentangle genome structure by comparing the sum of kmer...better from trimmed reads and show the haplotype structure...799 days ago
Genomicus: genome browser that enables users to navigate in genomes in several dimensions
Genomicus is a genome browser that enables users to navigate in genomes in several dimensions: linearly along chromos...nomes. Moreover, Genomicus stores and displays the predicted ancestral genome structure...795 days ago
GenomeQC: a quality assessment tool for genome assemblies and gene structure annotations
The GenomeQC web application is implemented in R/Shiny version 1.5.9 and Python 3.6 and is freely available at https://genomeqc.maizegdb.org/ under the GPL lic...716 days ago
Collection of Graph Visualization tools !
Standard approaches to genome inference and analysis relate sequences to a single linea...ences from this reference are hard to observe and describe in a coherent way. Variation and sequence are separated....465 days ago
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