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1542 days ago
Perl one-liner for beginners !
I often use the following arguments to perl: -e Makes the line of code be executed instead of a script -n Forces your line to be called in a loop. Allows you to take lines from t...1375 days ago
Protocol for De novo Genome Assembly using Illumina Reads
...Quality trimming/cleanup of read files.This function trims adapters, barcodes and other contaminants from...ome assembly http://bioinf.spbau.ru/quastMauve assembly metrics - http://code.google.com/p/ngopt/wiki/How_T...1198 days ago
Run bash script in Perl program !
...a compilation of Perl modules that can be used to build bioinformatics-related Perl scripts. It is used, for example, in the development of source codes, standalone software/tools,...631 days ago
Levenshtein and Damerau-Levenshtein distance !
...o; to “c”, which will give us a Levenshtein Distance of 2.Edit Distance is very easy to implement, and it is a popular challenge during code interviews Additionally, so...944 days ago
Basic Structure of Snakemake Pipeline Run !
/user/snakemake-demo$ ls config.json data envs scripts slurm-240702.out Snakefile data = mock data for the snakefile to use Snakefile = name of the snakemake &ldq...928 days ago
Classification of SARS-CoV2 Variant !
...her country or a province of a large and populous country.It should differ from its ancestor by at least one nucleotide.At least 95% of its genetic code should have been sequenced at...885 days ago
Illumina based assembly pipeline steps !
Illumina Merge re-sequenced FastQ files (cat) Read QC (FastQC) Adapter trimming (fastp) Removal of host reads (Kraken 2; optional) Variant calling Read alignme...871 days ago
Understanding DUMP files from NCBI Taxonomy database !
...(superkingdom, kingdom, ...) embl code -- locus-name prefix; not uni...e inherits division from parent genetic code id -- see gencode.dmp file &...e division id division cde -- GenBank division code (three characters) division...654 days ago