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...1268 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...1097 days ago
QuasR: Quantification and annotation of short reads in R
...AT2, through the Rhisat2 package). The package aims to cover the whole analysis workflow of typical high thro...quantification. A single R script can contain all steps of a complete analysis, making it simple to document...1049 days ago
Kmer: a suite of tools for DNA sequence analysis
...rom Fasta) is a utility program for working with multi-fasta files. In addition to providing random access to the base level, it includes several analysis functions. Meryl:...1045 days ago
RNA-Seq differential expression work flow using DESeq2
One of the aim of RNAseq data analysis is the detection of differentially expressed genes. The package DESeq2 provides methods to test for differential expression analysis.1039 days ago
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RNA-seq workflow: gene-level exploratory analysis and differential expression
...TQ files, show how these were quantified to the reference transcripts, and prepare gene-level count datasets for downstream analysis. We will perform exploratory data analysis (EDA) for quality assessment...992 days ago
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GenomeTools: The versatile open source genome analysis software
The GenomeTools genome analysis system is a free collection of bioinformatics tools (in the realm of genome informatics) combined into a single binary nam...876 days ago