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We need to control the version of the file format in each SDRF. If the standard develops over time (as expected) would be great to control what is the version for a specific file.
My proposal is t…
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@rudnickp @daichengxin :
CPTAC datasets have same `assay name` for different `data files` which is wrong:
- [ ] @rudnickp or @daichengxin can you fix that.
- [ ] @levitsky can we validate t…
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Hi @bigbio/collaborators :
The following dataset https://github.com/bigbio/proteomics-metadata-standard/blob/b9b3463bef54e8dd1410d1cac3c9961e67a569af/annotated-projects/PXD003539/PXD003539.sdrf.ts…
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Add an automatic split of the produced SDRF-IDF based on species and technology.
Currently, it is expected by a wrangler to split the spreadsheet by those 2 parameters before using the tool; I woul…
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There are plenty of idf and sdrf fields that are not accounted for in this tool currently. This is a ticket to add new tick boxes for these with default values (or empty space) and also to change the …
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Hi,
I tried to run the MaxQuant converter with the sdrf file from here: https://github.com/bigbio/sdrf-pipelines/tree/master/sdrf_pipelines/testdata and a newly downloaded human uniprot fasta file…
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Hi,
I've run the pipeline successfully with test and with the pxd001819 dataset but can't get it to run with my own data. The data are being supplied locally and I'm not sure I've specified the para…
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Hi,
recent commits broke the OpenMS converter. It has to do with making the conditions a semicolon-separated list and only putting the first element to the OpenMS experimental design.
E.g. for PXD…
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### Description of the problem:
The conversion seem to never complete after clicking on `Process` on the web interface .
![hca-to-scea-tool_Screenshot](https://user-images.githubusercontent.c…
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Annotations that are giving error while generating mqpar file;
PXD002171
PXD013765
PXD000561
Couple of screen shots of error messages:
For PXD000561, the error was in the version of UNIMO…