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338

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How to submit multithreaded jobs on SLURM and determine number of threads?

slurm written 3 months ago by steve • 1.8k • updated 3 months ago by Devon Ryan ♦ 86k

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606

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usage of OMA on a HPC cluster with slurm

oma slurm written 11 months ago by Young • 0

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625

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Failure to launch OMA in array mode on SLURM cluster

orthologs oma slurm written 13 months ago by jeremias.br • 10

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591

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Tutorial: Installing multiprocessor-capable MEME to work with a Slurm job scheduler environment

slurm parallelization meme parallel tutorial written 14 months ago by Alex Reynolds ♦ 26k

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920

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CWL: SLurm Job Sheduler

slurm cwl written 18 months ago by kevin.o.oluoch • 60 • updated 18 months ago by Michael R. Crusoe • 1.1k

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3.0k

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How to set $TMPDIR in a parallel processing

hpc gun parallel slurm written 3.4 years ago by lisadavic66 • 0 • updated 20 months ago by el.unico.joe • 0

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431

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any recommendations about public computer clusters?

slurm computer cluster written 21 months ago by vmicrobio • 230

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1.1k

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Cufflinks: exceeded memory limit (31836604 > 31457280), being killed

memory limit cufflinks slurm written 2.6 years ago by debitboro • 110

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1.2k

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Errors attempting to start OMA job on SLURM-managed cluster

oma slurm written 2.8 years ago by Adamc • 540 • updated 2.7 years ago by adrian.altenhoff • 420

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Recent Replies

C: Pilon polishing highly repetitive nanopore assembly by treitlis • 30
Thank you for your quick reply. The chloroplast genome is probably 500 kbp (I am not sure even ...
C: Assembly gene prediction/annotation of plant mitochondria by Vijay Lakhujani ♦ 3.4k
Good suggestion. Done !
C: Assembly gene prediction/annotation by toralmanvar • 710
I think you should frame your question to include word "plant mitochondria", so that people can s...
C: Assembly gene prediction/annotation by toralmanvar • 710
That's for assembly and not annotation.
A: Assembly gene prediction/annotation by toralmanvar • 710
You can use [Geseq][1] which is web based tool and easy to use. It works well with both mitochond...
C: Failed to populate reference for id 1? by finswimmer ♦ 7.8k
Hello again, no I haven't found any source for this information. It was more an interpretation o...
C: Pilon polishing highly repetitive nanopore assembly by WouterDeCoster ♦ 35k
Thank you for your well-written and detailed question. I have slightly adapted your title to make...
C: Parsing error with Provean : Someone else ? by jsgounot • 130
Sorry, really old topic and when I look at what I wrote at that time about this, I think I just g...
C: Analysis Without Replicates by ATpoint ♦ 10k
In case the shrinkage does not give satisfying results and you have to use unshrunken FCs, I woul...
C: RNA-strandness of single cell library prep methods by Juke-34 • 1.7k
I guess yes firststrand (RF) sound the one to use.
C: GATK best practices for Broad-produced NGS data by Mehulsharma.253 • 0
Thank you ! GATK forums seems to be having some issues with enabling posting and commenting becau...
C: Analysis Without Replicates by kristoffer.vittingseerup • 980
Sounds like a good plan, especially with the log2FC shrinkage - just remember log2FC != pvalues

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