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RASTtk : algorithm for building custom annotation pipelines and annotating batches of genomes
...by offering a standard software pipeline for identifying genomic features (i.e.,...nes and RNA) and annotating their functions. Recently, in order to make RAST a mo...lines. RASTtk offers a choice of software for identifying and annotating genomic...2982 days ago
GATB : Genome Analysis Toolbox with de-Bruijn graph
...lysis Toolbox with de-Bruijn graph (GATB) provides a set of highly efficient algorithms to analyse NGS dat...sets of any size on multi-core desktop computers, including very huge amount of reads data coming from any...2981 days ago
- ...s grows by the day, quality assessment of the resulting assembled se...; BUSCO provides measures for quantitative assessment of genome a...bsp;OrthoDB. BUSCO assessments are implemented in open-sour...n pipelines. BUSCO assessments offer intuitive metrics, bas...
2969 days ago
- ...etions. Furthermore, segemehl is not limited to a specific read length and is able to map primer- or polyadenylation contaminated reads correctly. segemehl implements a matching strategy based on...
2969 days ago
YASS :: genomic similarity search tool
...mat (it produces local pairwise alignments). Like most of the heuristic pairwise local alignment tools for DNA sequences (FAST...n tries to extend them to local alignments. This genomic search tool us...yrimidine [C<->T]) using different scoring schemes with bit-scor...2977 days ago
Painless package development for R
Devtools makes package development a breeze: it works with R’s existing conventions for code structure, adding efficient tools to support the cycle of package developmen...lt layout whenever you’re writing a significant amount of code. Before you g...2976 days ago
- ...ically to satisfy the demanding needs of high performance computing. This page is a HOWTO guide for setting up a SLURM installation, currently focused on a CentOS 7 Linux OS. Please send fee...
2975 days ago
- ...es, primers, poly-A tails and other types of unwanted sequence from your high-thr...ften required: Reads from small-RNA sequencing contain the 3’ sequencing ad...NA from your sample, but often you don’t want them to be in your reads. Cu...
2966 days ago
- ...shimoto K, Noguchi H, Toyoda A, Ogura Y, Okuno M, Yabana M, Harada M, Nagayasu E, Maruyama H, Kohara Y, Fujiyama A, Hayashi T, Itoh T, “Efficient de novo assembly of highly he...
2966 days ago
- ...ated genomes. These distances can be used to rapidly infer phylogenies for big sets of genomes. Because andi does not compute full alignments, it is so efficient that it scales even up to tho...
2966 days ago
