List of bioinformatics workflow management tools !
...2018 | web ] Nextflow (recommended) – A fluent DSL modelled around the UNIX pipe concept, that simplifies writing parallel and scalable pipelines in a p...1140 days ago
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Public Databases for Bioinformatics !
...results can be reproduced /srv/www/$LABNAME/ web accessible from mitra.stanford.edu *NOT BACKED UP* Some parallel programming patterns: # gzip a bunch of files parallel gzip -- *.FILESTOGZIP # fo...1137 days ago
COSMOS, our workflow management system for NGS data
COSMOS, our Python-based management system for implementing large-scale parallel workflows focusing on, but not restricted to, large-scale short-read "NGS" sequencing data is open-acce...3571 days ago
Genome Assembly Tools and Software - PART2 !!
...s (also known as quasi-species). Genomix 0.2.11 – Parallel Genome Assembly using HyracksGenomix is a parallel genome assembly system built...T-cell metagenomes using short reads from the massively parallel sequencing platforms. IDBA /...2683 days ago
Awesome perl frameworks, libraries and software - PART 2
...dnmfarrell/perltricks-static - PerlTricks.com is a website dedicated to Perl programming code and community news. dluxhu/perl-parallel-forkmanager - Parallel::ForkManager dams/riak-clien...2492 days ago
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Useful Publications and Websites for Deep Sequencing Data Analysis
...ssemblies of mammalian genomes from massively parallel sequence data. Gnerre et al,...ibes Trans-ABySS, a pipeline to use the ABySS parallel assembler for de novo transcr...enome evolution and meiotic maps by massively parallel DNA sequencing: spotted gar,...3777 days ago
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Walk-in-Interview @ Indian Agricultural Statistics Research Institute
...nce Expertise in Java programming. Knowledge of system administration and networking under Linux environment. Knowledge of parallel programming and cluster compu...3865 days ago
Bioinformatic/computational postdoc at South Dakota State University
...environment. • Perl, Python and Java programming experience • Data management and database development experience Desired Qualifications: • Parallel computing experience • Exper...3704 days ago
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Calculate ATGC percentage in parallel with perl
#!/usr/bin/perl use strict; use Parallel::ForkManager; use Bio::SeqIO; #usage: perl testParallel.pl my %sequences; my $seqio = Bio::SeqIO->ne...D's back to child specific information my $pm = new Parallel::ForkManager($max_procs);...2653 days ago
2149 days ago
Parallel Processing with Perl !
Here is a small tutorial on how to make best use of multiple processors for bioinformatics analysis. One best way is using perl threads and forks. Knowing how these threads and forks work is very important before implementing them. Getting to know how these work would be really useful before read...Tags: Parallel, Processing, Perl, Bioinformatics, Programming
2077 days ago
Comment on "Nanopolis: polish a genome assembly"
...draft.fa reads.fa | samtools sort -o reads.sorted.bam -T reads.tmp - samtools index reads.sorted.bam python nanopolish_makerange.py draft.fa | parallel --results nanopolish.results...2097 days ago
2120 days ago