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Showing : parallel • reset
2
Votes
5
Replies
1.3k
Views
How about my parallel bwa+gatk pipeline?
gatk parallel pipeline ngs
3.3 years ago
bluemonster0808 • 40 • updated 21 months ago
Charles Warden 6.8k
0
Votes
3
Replies
129
Views
Speed up psiblast of 11k alignments
psiblast parallel
21 months ago
fhsantanna • 440
0
Votes
1
Reply
148
Views
RepeatModeler contig size filter and parallelization
RepeatModeler Contig length Parallel
23 months ago
Anand Rao • 210
3
Votes
4
Replies
812
Views
Parallel for bwa mem - problem with -R argument for ID and SM
parallel alignment bwa
3.0 years ago
Korsocius • 110 • updated 23 months ago
ATpoint 17k
314
Votes
78
Replies
109k
Views
30 follow
Tool: Gnu Parallel - Parallelize Serial Command Line Programs Without Changing Them
tools parallel next-gen ngs Tool
24 months ago
ole.tange ♦ 3.4k
1
Vote
7
Replies
291
Views
Snowfall Parallelisation to compute Correlation Matrix
snowfall parallel
24 months ago
vincentpailler • 50
5
Votes
3
Replies
339
Views
Best approach for parallelizing bwa mem over multiple CPUs
bwa hpc parallel
2.1 years ago
olikidrod • 0 • updated 2.1 years ago
genomax 68k
7
Votes
10
Replies
1.7k
Views
6 follow
trying to use gnu parallel and blast
blast parallel gnu parallel blastx optimization
3.7 years ago
pablo61991 • 70 • updated 2.2 years ago
Giuseppe • 0
2
Votes
2
Replies
1.3k
Views
GATK: -nct and -nt
gatk parallel
3.9 years ago
fire_water • 80 • updated 2.2 years ago
nick.carleson • 10
12
Votes
0
Replies
547
Views
Tool: Book: GNU Parallel 2018 - for beginners and advanced users
tool ngs parallel Tool
2.3 years ago
ole.tange ♦ 3.4k
14
Votes
17
Replies
3.9k
Views
8 follow
Parallel Computing With Key/Value Stores (Multiple Writes)
parallel database
9.9 years ago
Sequencegeek • 740 • updated 2.5 years ago
amirouche.boubekki • 10
10
Votes
2
Replies
3.9k
Views
Bwa: Number Of Threads
bwa next-gen sequencing parallel hardware
10.7 years ago
Pierre Lindenbaum 120k • updated 2.5 years ago
RamRS 21k
3
Votes
16
Replies
1.7k
Views
How to let WGCNA use multiple cores
WGCNA multe-thread parallel
3.8 years ago
syrttgump • 30 • updated 2.6 years ago
yplee614 • 0
3
Votes
13
Replies
1.3k
Views
Trim_galore on multiple fast.qz files: syntax problem
nsg trim_galore gnu parallel
2.7 years ago
m93 • 150
2
Votes
2
Replies
473
Views
Are there any GNU parallel or similar Shell/Bash code examples on how to run Snap and BWA aligners on a batch of paired .fastq files?
gnu parallel shell snap bwa
2.9 years ago
england_bioinformatics_team • 20 • updated 2.9 years ago
ATpoint 17k
2
Votes
3
Replies
519
Views
Are there any working GNU parallel or similar Shell code examples on how to run Pilon, Prokka, VT and Snpeff tools on a batch of input files?
gnu shell parallel prokka snpeff
2.9 years ago
england_bioinformatics_team • 20 • updated 2.9 years ago
Joe 12k
5
Votes
9
Replies
3.2k
Views
Using parallel with Mem
mem BWA Parallel
6.9 years ago
always_learning • 970 • updated 3.0 years ago
Korsocius • 110
8
Votes
2
Replies
603
Views
Running assemblies in parallel
parallel Assembly fastq
3.1 years ago
marit.hetland • 30 • updated 3.1 years ago
Joe 12k
0
Votes
1
Reply
391
Views
How to apply bedtools intersect function with GNU parallel for bacth BED file comparison?
bedtools parallel intersection
3.1 years ago
texaswhiskey1969 • 0 • updated 3.1 years ago
ATpoint 17k
0
Votes
2
Replies
492
Views
How to rewrite convert2bed function from BEDOps using GNU parallel for batch processing?
convert2bed bedops parallel
3.1 years ago
texaswhiskey1969 • 0 • updated 3.1 years ago
jean.elbers ♦ 1.1k
2
Votes
3
Replies
786
Views
Why can't I use a GRanges txDb with clusterMap function? (as input or output)
R genomicFeatures parallel clusterMap
3.2 years ago
jhanks1981 • 0
2
Votes
2
Replies
561
Views
Paralellize samtools piped with awk
parallel samtools
3.3 years ago
Korsocius • 110
0
Votes
2
Replies
701
Views
How to increase the speed of miRanda target prediction program?
miranada mirna parallel
3.3 years ago
Vijay Lakhujani 4.1k
4
Votes
3
Replies
598
Views
Has anyone tried to run SNPEff, Bedtools or Prokka with GNU parallel or a similar batch engine?
gnu parallel snpeff bedtools prokka
3.3 years ago
bioinformatics_bel • 20 • updated 3.3 years ago
WouterDeCoster 39k
5
Votes
0
Replies
801
Views
Tutorial: Installing multiprocessor-capable MEME to work with a Slurm job scheduler environment
meme slurm parallelization parallel Tutorial
3.5 years ago
Alex Reynolds 28k
0
Votes
2
Replies
587
Views
What platform similar to Galaxy can handle multiple batch processing of bacterial genomes, mutation profiling and GWAS?
galaxy platform parallel mutation profiling gwas
3.6 years ago
bioinform • 20 • updated 3.6 years ago
colindaven ♦ 1.3k
13
Votes
11
Replies
1.0k
Views
6 follow
Is it possible to run variant calling software in parallel, are there any Shell and Python/R code examples available?
parallel vcf variant calling
3.6 years ago
bioinform • 20 • updated 3.6 years ago
ivivek_ngs ♦ 4.8k
2
Votes
3
Replies
657
Views
how to run obisplit in parallel
obitools obisplit parallel linux fastq
3.8 years ago
Roman Luštrik • 70
5
Votes
4
Replies
1.5k
Views
parse error with samtools
samtools linux parallel
4.0 years ago
a.rex • 190
2
Votes
4
Replies
1.1k
Views
Perl::ForkManager does not speed up ATCG calculation
Perl Parallel Speed ForkManager
4.1 years ago
BioGeek • 140 • updated 4.1 years ago
RamRS 21k
0
Votes
0
Replies
788
Views
PASTEC repeat classification software (part of REPET) help needed
repeat classification repet pastec parallel torque
4.1 years ago
mcsimenc • 10
2
Votes
1
Reply
938
Views
Why trim_galore don't have parallel mode?
trim_galore adaptor parallel
4.2 years ago
Shicheng Guo ♦ 7.5k
5
Votes
2
Replies
1.4k
Views
Parallelizing MAFFT alignment of multiple FASTA files
alignment mafft parallel
4.5 years ago
ropolocan • 520
3
Votes
7
Replies
1.2k
Views
parallel program for running a command for several files
parallel Forum
4.6 years ago
prasoon.agarwal • 10 • updated 4.6 years ago
Asaf 5.6k
8
Votes
5
Replies
856
Views
BLASTing very many 10-mers to human genome
cloud parallel blast
4.8 years ago
sor.hub.lennart • 10 • updated 4.8 years ago
5heikki 8.4k
31
Votes
21
Replies
2.2k
Views
Job Manager to parallelize otherwise consecutive bash scripts..?
parallel xargs bash
5.1 years ago
John 12k • updated 5.1 years ago
ole.tange ♦ 3.4k
4
Votes
5
Replies
1.8k
Views
How to use BBMap for aligning a set of .fastq files?
bbmap bash parallel
5.2 years ago
usgenome2018 • 30 • updated 5.2 years ago
Matt Shirley 9.0k
0
Votes
3
Replies
2.1k
Views
How to download multiple expression datasets from EBI database using ArrayExpress
ebi microarray parallel
5.3 years ago
deepue • 110 • updated 5.3 years ago
genomax 68k
7
Votes
4
Replies
1.9k
Views
Running multiple instances of STAR in one directory
RNA-Seq STAR galaxy parallel
5.4 years ago
Michael Dondrup 46k
3
Votes
14
Replies
1.8k
Views
Distributed (parallel) BLAST. Calculating E-values and other statistics params.
E-value BLAST Distributed Parallel bit-score
5.4 years ago
vladimir.khramkov • 10 • updated 5.4 years ago
Damian Kao 15k
4
Votes
6
Replies
5.7k
Views
Cuffdiff Is Taking Forever. Can I Parallelize It?
cufflinks cuffdiff parallel
9.6 years ago
Ryan Thompson ♦ 3.4k • updated 5.5 years ago
Biostar 20
4
Votes
1
Reply
1.8k
Views
seqtk trimfq in parallel fastx_trimmer
RNA-Seq seqtk parallel
5.7 years ago
syuja • 20
15
Votes
18
Replies
16k
Views
8 follow
BLAST, setting maximum number of hits
BLAST tblastx parallel
6.0 years ago
apelin20 • 470 • updated 6.0 years ago
RamRS 21k
36
Votes
13
Replies
4.6k
Views
9 follow
Bioinformatics Tutorials Utilizing The Go ( Of Google Fame ) Programming Language
parallel
9.3 years ago
Delinquentme • 200 • updated 6.1 years ago
Samuel Lampa ♦ 1.2k
2
Votes
7
Replies
1.1k
Views
Counting read spacing efficiently
sequencing alignment DNase-seq parallel
6.1 years ago
André Rendeiro • 50 • updated 6.1 years ago
Alex Reynolds 28k
2
Votes
1
Reply
1.7k
Views
Accelerating BLAST for million sequence BLASTp all-by-all
BLAST parallel cpu mpi
6.1 years ago
Anand Rao • 210 • updated 6.1 years ago
SES 8.2k
2
Votes
7
Replies
1.9k
Views
GNU Parallel Block Issues
blast parallel GNU parallel block
6.2 years ago
salamayg • 20 • updated 6.2 years ago
ole.tange ♦ 3.4k
1
Vote
1
Reply
1.4k
Views
VariantAnnotation parallel usage
R bioconductor parallel
6.3 years ago
russhh ♦ 4.4k
0
Votes
2
Replies
1.6k
Views
How to bind MPI parallel processes to specific cores
MPI bind to core parallel
6.3 years ago
Ginsea Chen • 120
51
Votes
14
Replies
3.7k
Views
12 follow
How To Think In Parallel In Bioinformatics
parallel
10.3 years ago
Andrea_Bio ♦ 2.5k • updated 6.3 years ago
ole.tange ♦ 3.4k
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