Opened 17 years ago
Last modified 17 years ago
#486 closed task
Import raw data from the Illumina platform — at Version 3
| Reported by: | Nicklas Nordborg | Owned by: | Nicklas Nordborg |
|---|---|---|---|
| Priority: | minor | Milestone: | BASE 2.4 |
| Component: | coreplugins | Version: | |
| Keywords: | Cc: |
Description (last modified by )
A discussion about importing raw data from the Illumina platform was started on the mailing list. See:
http://sourceforge.net/mailarchive/forum.php?thread_id=31600057&forum_id=12992
Since it seems that the file format is not compatible with the existing import plugin a new plugin or something else is needed. One working solution (by Jeremy Davis-Turak) is to split the data file into one file for each hybridization with an R script and then use the regular import plugin.
Does anybody have any real and up-to-date Illumina files? We need some that we can do tests with. Without test data we are not able to create an integrated plug-in for the import.
Change History (5)
comment:1 by , 17 years ago
| Milestone: | → BASE 2.x+ |
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by , 17 years ago
| Attachment: | Illumina conversion.txt added |
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by , 17 years ago
| Attachment: | extended-properties.xml added |
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Extended properties file edited by Jeremy Davis-Turak to include reporter columns used by Illumina
comment:2 by , 17 years ago
| Milestone: | BASE 2.x+ → BASE 2.4 |
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comment:3 by , 17 years ago
| Description: | modified (diff) |
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R script to convert a multi-array Illumina .csv output file into multiple single-array files.