PerlOneLiner for Bioinformatician
...'$_ = "$. $_" if /regex/' # Number all lines in a file using a custom format (emulate cat -n)perl -ne 'pri...perl -le 'print scalar localtime' # Print local computer time in H:M:S formatperl -le 'print join ":", (loc...2294 days ago
Linux Commands Cheat Sheet for Bioinformatics and Computational Biology Professionals
...s to introduce biologist and bioinformatician to the frequently used t...urrent directory and show in long format to see perimissions, size, an...inger user — display information about user man command&nbs...s whois domain — get information for domain dig domain ...2272 days ago
LINKS scaffolder bloomfilter setting !
...INKS Usage: ./LINKS [v1.8.6] -f sequences to scaffold (Multi-FASTA format, required) -s file-of-filen...ath to long sequence reads or MPET pairs [see below] (Multi-FASTA/fastq format, required) -m MPET reads (d...2143 days ago
Understanding BLASTn output format 6 !
BLASTn output format 6 BLASTn maps DNA against DNA, fo...ect genome.fna -outfmt 6 BLASTn tabular output format 6 Column headers:qseqid sseq...core bit score Define your own output format by adding the option -outfmt...2130 days ago
Steps to find all the repeats in the genome !
...e you have the genome sequence in a FASTA file format. Let's assume the file is nam...file. You can parse this file to extract the information you need. There is a Perl....copynumber.csv, which contain quantitative information about the identified repea...240 days ago