Bioinformatic data analysis (plain text file processing)
$30-250 USD
Πληρώθηκε κατά την παράδοση
The Perl program has to compare text files (also using external programs listed below) and produce an output according to specifications. This is a bioinformatics program, so it's a benefit, although not a mandatory requisite, to have some knowledge in the field.
Accepted dependencies: standard Perl modules (i.e. found in every Debian based distribution, since 2010); "samtools", "bedtools".
Used formats: VCF [[url removed, login to view]], BED [[url removed, login to view]]
Input:
0) real_bed: a BED file describing the "sure" regions
1) real_vcf: a VCF file with "sure" variants
2) whole_vcf: a VCF file with all variants found by an external software
3) target_bed: a BED file containing all the regions in the genome that could be possibly validated: any variant eventually falling outside these boundaries has to be discarded
4) covered_bed: a BED file describing which regions have been covered by the experiment that produced
Output: Classification (and statistics) on variants resulting from the comparison of real_vcf and whole_vcf considering also the bed files. Details attached.
Please note that speed is not among selection criteria (ok, let's say 30 days maximum).
Documented and well written code is.
Ταυτότητα Εργασίας: #7058324
Σχετικά με την εργασία
3 freelancers κάνουν προσφορές κατά μέσο όρο $170 για αυτή τη δουλειά
Dear potential employer. Perl expert here. Please, accept this bid to have your task done with the best professional quality
Thank you for the opportunity to work! Previously, I had not working in the field of bioinformatics, although I have a general knowledge about it. I plan to use the built-in Perl associative arrays (hash) to quickly Περισσότερα