Moderator: Jeremy Leipzig
Jeremy Leipzig ♦ 17k
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- Philadelphia, PA
- Website:
- http://jermdemo.blogsp...
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- jermdemo
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- Last seen:
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- Joined:
- 7 years, 7 months ago
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I am a bioinformatics software developer known mostly for my posts on big-ass servers, damn microarray papers, and the reproducible research guilt trip, as well as my review of pipeline frameworks. I have worked in virology, crop genomics, and on various pediatric diseases as a programmer, analyst, and architect. I'm currently a PhD student at Drexel.
Posts by Jeremy Leipzig
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... ...or why not use one of the many fine pipeline frameworks actually designed for this? ...
written 29 days ago by
Jeremy Leipzig ♦ 17k
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... Show us what `genes` looks like after your faulty code above. ...
written 29 days ago by
Jeremy Leipzig ♦ 17k
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... that R is gibberish. What do you think the gene vector should look like? ...
written 4 weeks ago by
Jeremy Leipzig ♦ 17k
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... for general editing I have been using Cloud9 https://c9.io, which is definitely not free if you need privacy but is definitely worth every penny ...
written 6 weeks ago by
Jeremy Leipzig ♦ 17k
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Comment:
C: CWL rerunning completed output
... though I've never tested CWL with either of these tools - both Toil https://toil.readthedocs.io/en/3.10.0/running/cwl.html and Nextflow https://github.com/nextflow-io/cwl2nxf offer some support for CWL and are reentrant ...
written 6 weeks ago by
Jeremy Leipzig ♦ 17k
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... i don't think even the RUM people use RUM anymore ...
written 6 weeks ago by
Jeremy Leipzig ♦ 17k
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C: CWL rerunning completed output
... yes reentrancy is one of those things the make crowd takes for granted but the workbench people find especially challenging to implement ...
written 6 weeks ago by
Jeremy Leipzig ♦ 17k
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... yes nice support for ontologies to define input/output formats in CWL
https://github.com/ProteinsWebTeam/ebi-metagenomics-cwl/blob/master/tools/fastq_to_fasta.cwl
cwlVersion: v1.0
class: CommandLineTool
hints:
- class: SoftwareRequirement
packages:
biopytho ...
written 11 weeks ago by
Jeremy Leipzig ♦ 17k
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... ![http://i.imgur.com/IAYtE2il.png][1]
[1]: http://i.imgur.com/IAYtE2il.png ...
written 4 months ago by
Jeremy Leipzig ♦ 17k
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Comment:
C: is seqanswers.com down?
... Hello mjp!
We believe that this post does not fit the main topic of this site.
off-topic
For this reason we have closed your question. This allows us to keep the site focused
on the topics that the community can help with.
If you disagree please tell us why in a reply below, we'll be happy to ...
written 4 months ago by
Jeremy Leipzig ♦ 17k
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