Quick next generation sequencing (NGS) terms definition
...potential SV or a short insertion or deletion (indel).read depth: number of reads that map within a re...depth is also referred to as depth of coverage. It is expected that the number of reads that “cover&rd...2536 days ago
Awesome perl frameworks, libraries and software - PART 1
...of RDF::Query may be found on CPAN: http://search.cpan.org/dist/RDF-Query/ danaj/Math-Prime-Util - Perl (XS) module implementing prime number utilities, including sieves...2504 days ago
Phylogenetic & Molecular Genetics Terms and Definitions
...r one subclade within the Mammalia. diversity -- Term used to describe numbers of taxa, or variation in mor...possible cladograms, which states that the cladogram implying the least number of changes in character state...2476 days ago
2365 days ago
Edit distance application in bioinformatics !
...e. Text::Brew is an implementation of the Brew edit distance, which is another algorithm based on edit weights. Text::Fuzzy provides a number of operations for partial or...2355 days ago
Tools for bacterial whole genome annotation
...le at: http://www.cbrc.kaust.edu.sa/BEACON/. BlastKOLA: Assigns K numbers to the user's sequence data...rthology And Links Annotation) is KEGG's internal annotation tool for K number assignment of KEGG GENES usin...2346 days ago
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PerlOneLiner for Bioinformatician
...$. % 10 ? "\t" : "\n"' LINE NUMBERING-------------- # Number all lines in a fileperl -pe '...bs } @F]}"' # Find the total number of fields (words) on each lin...a".."f") # Convert a decimal number to hex using @hex lookup tabl...ck if the string is a decimal number/^\d+$//^[+-]?\d+$//^[+-]?\d+\...2316 days ago
Linux Commands Cheat Sheet for Bioinformatics and Computational Biology Professionals
...o is everyone else's permissions. The values of u, g, and o can be any number between 0 and 7. 7 &mdas...ir — search recursively for pattern in dir and show the line number found grep -r pattern dir --i...2295 days ago
Awk for Bioinformatician and computational biologist
...contig3 $ awk '/contig3/' data/test.tsvcontig3 ACTTATATATATATAAwk has number of builtin variables. For eac...nts the whole line. NF is a builtin variable which represents the total number of fields in a record. $ awk...2294 days ago