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...e data ("contigs") derived from (often unintentionally) mixed-species pools. It allows the simultaneous display of GC content, coverage, and taxonomic annotation for collections of cont...2939 days ago
CovCal: Coverage / Read Count Calculator
...e (or vice versa). Instructions: set the read length/configuration and genome size, then select what you...eads as N=CG/L where C = Coverage (X),L = Read length (bp), G = Haploid genome size (bp), and N = Number o...2223 days ago
CNIDARIA: fast, reference-free phylogenomic clustering
...thods analyse unprocessed sequencing data without relying on prior knowledge, but these do not scale to arbitrarily large g...clustering genomic and transcriptomic data with no limitation on ge-nome size or phylogenetic distan...2937 days ago
- ...methods paper here: https://peerj.com/articles/1319/ Anvi’o would not have been possible without t...who directly or indirectly contributed to its development. Here is the acknowledgements section of our met...
2937 days ago
- ...ICS: A Journal of Integrative Biology, 16(5), pp. 284-287.InstallationTo install this package, start R and enter:## try http:// if https:// URLs are not supportedsource("https://bio...
2937 days ago
- ...enetically atypical proteins on a genome-wide basis. It works by sel...hes from a reference database of amino acid sequences, then using th...ase match sequences and the query genome. These scores are useful no...netic background of potential HGT donors as well as recipients. The...
2931 days ago
- ...etween organisms, is crucial for genetic innovation and the evolution of genome architecture. Existing HGT...rtically derived) genes in its recipient genome. Detecting HGT between clos...and often time-sensitive. We developed a novel, self-contained technique...
2931 days ago
- ...ext-generation sequence analysis. The primer is also designed to be self-contained and hands-on, meaning that you only need to install SAMtools, and no other tools, and sample data...
2930 days ago
- ...s a small tool for simulating sequence reads from a reference genome. It is able to simulate diploid genomes with SNPs and insertion/de...late reads with uniform substitution sequencing errors. It does not generate INDEL sequencing er...
2930 days ago
- ...MAC OS and Windows platforms. Currently CSBB provides 13 modules focused on analytical tasks like performing upper-quantile normalization on expression data or convert genome wide gene expression to z-s...
2924 days ago
