Results for "parallel"
Blogs
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...1131 days ago
- ... - *R Advanced R Topics Plots (PDF, R) Miscellaneous Plots Functions (PDF, R) Writing Functions in R Parallel (PDF, R) Parallel Execution Packaging (R) Pull...
3253 days ago
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Bookmarks
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...1128 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...3563 days ago
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Pages
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 /...2674 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...2483 days ago
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Top-level pages
- ...thms are specified by supplying only the logic component. Serial or parallel Algorithms are usually dis...n of an algorithm at a time. This is a serial algorithm, as opposed to parallel algorithms, which take advant...
3935 days ago
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,...3768 days ago
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Wire posts
News
- ...h to considerably speed GWAS computation time on a notebook book computer. More http://www.extension.org/pages/68354/upcoming-webinar:-fast-semi-parallel-linear-and-logistic-regressio...
3877 days ago
- ...sequencing has come a long way in aiding genetic disease diagnosis by bringing down both the time and cost of testing. Testing involves massively parallel sequencing of a single to 100...
2298 days ago
Opportunity posts
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...3856 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...3695 days ago
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ResearchLabs posts
- ...hnology 2012), and generally fall into one of six areas: 1) next-generation human genetics; 2) genome contiguity & completeness; 3) massively parallel functional analysis; 4) molec...
3849 days ago
- ...ithmic tools and molecular physics tools to study basic principles of cellular functioning starting from genomic data. We run several projects in parallel, all aiming at understanding...
3255 days ago
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Video
- ...m the point of view of the cancer-causing somatic cell population, this is evolution driven by mutation and selection. Genomics has resulted in a parallel consensus that the central fu...
3861 days ago
Bio-Scripts
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);...2644 days ago
- ...ing './install-sh' configure.ac:8: installing './missing' Makefile.am: installing './INSTALL' Tests/AdHoc/Makefile.am: installing './depcomp' parallel-tests: installing './test-dri...
2140 days ago
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Tags
Many-Core Engine (MCE) for Perl example
MCE spawns a pool of workers and therefore does not fork a new process per each element of data. Instead, MCE follows a bank queuing model. Imagine the line being the data and bank-tellers the parallel workers. MCE enhances that model by adding the ability to chunk the next n elements from the in...Tags: Bioinformatics, Programming, Perl, MCE, Parallel, Core, Thread, Fork
2640 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
2068 days ago
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Comments
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...2088 days ago
- ..._identity <value>, --pi <value> threshold for identity [default : 85] -t <value>, --threads <value> count of threads for parallel execution [default : 1] -o &...
2111 days ago
- +6 more Comments
