Genomic Open-source Breeding informatics initiative
To build open-source genomic data management and analysis tools to enable breeders to implement genomic and marker-assisted selection as part of their routine breeding programs. To transform b...1279 days ago
Breedbase is a comprehensive breeding management and analysis software
Breedbase is a comprehensive breeding management and analysis software. It can be used to design field layouts, collect phenotypic information using tablets, support the collection of genotyping...1279 days ago
MMseqs2: ultra fast and sensitive sequence search and clustering suite
MMseqs2 (Many-against-Many sequence searching) is a software suite to search and cluster huge protein and nucleotide sequence...1267 days ago
1226 days ago
LoReTTA, a user-friendly tool for assembling viral genomes from PacBio sequence data
LoReTTA (Long Read Template-Targeted Assembler), a tool designed for performing de novo assembly of long reads generated from viral genomes on the PacBio platform. LoReT...1111 days ago
QuasiModo - Quasispecies Metric Determination on Omics
This repository contains the scripts and pipeline that reproduces the results of the HCMV benchmarking study. In thi...me assemblers and variant callers on 10 in vitro generated, mixed strain HCMV sequence...1108 days ago
Calling variants in non-diploid systems
The main challenge associated with non-diploid variant calling is the difficulty in distinguishing between the sequencing noise (abundant in all NGS platforms) and true...1108 days ago
QuasR: Quantification and annotation of short reads in R
...package). The package aims to cover the whole analysis workflow of typical high thro...sequencing experiments, starting from the raw sequence reads, over pre-processing an...R script can contain all steps of a complete analysis, making it simple to document...1060 days ago
Kmer: a suite of tools for DNA sequence analysis
...4db: Spliced alignment of cDNA and genomic sequences, from the same (sim4) or rel...access to the base level, it includes several analysis functions. Meryl: An out-of-core k-mer counter. The amount of sequence that can be processed for any...1055 days ago
1055 days ago