Timeline



Feb 3, 2020:

9:50 AM net.sf.basedb.reggie edited by Nicklas Nordborg
Adding an entry for Reggie 4.25 in the download table (diff)

Jan 31, 2020:

2:30 PM Ticket #1212 (Enable filtering step for variant calling in auto-confirm mode) closed by Nicklas Nordborg
fixed: In 5818: […]
2:30 PM Changeset [5818] by Nicklas Nordborg
Fixes #1212: Enable filtering step for variant calling in auto-confirm mode
8:29 AM net.sf.basedb.reggie/notes425 edited by Nicklas Nordborg
Update the release notes for Reggie 4.25 (diff)

Jan 28, 2020:

12:57 PM Ticket #1209 (Add support for storing TMA specimen) closed by Nicklas Nordborg
fixed
12:54 PM Changeset [5817] by Nicklas Nordborg
References #1220: Auto-analyze in the MIPs pipeline should start the …
12:50 PM Ticket #1208 (Implement wizard for building database of variant frequencies in ...) closed by Nicklas Nordborg
fixed
12:49 PM Ticket #1215 (Include mutation signature analysis in the variant calling pipeline) closed by Nicklas Nordborg
fixed
12:48 PM Ticket #1225 (Update databases used in variant calling pipeline) closed by Nicklas Nordborg
fixed
8:54 AM Changeset [5816] by Nicklas Nordborg
References #1225: Update databases used in variant calling pipeline …
8:20 AM Ticket #1225 (Update databases used in variant calling pipeline) created by Nicklas Nordborg
The aim is to update all databases that has been updated since the …
7:50 AM net.sf.basedb.reggie/notes425 created by Nicklas Nordborg
Added note about updating to Reggie 4.25

Jan 27, 2020:

9:45 AM Ticket #1221 (Display more information in the Variant summary dialog) closed by Nicklas Nordborg
fixed
9:38 AM Ticket #1216 (Finalize the "Confirm MIPs demux" wizard) closed by Nicklas Nordborg
fixed
9:37 AM Ticket #1222 (Remove the G5 distance calculations from the variant calling script) closed by Nicklas Nordborg
fixed

Jan 24, 2020:

2:37 PM Changeset [5815] by Nicklas Nordborg
References #1208: Implement wizard for building database of variant …

Jan 23, 2020:

8:46 AM Ticket #1224 (The RNAseq library preperation wizard display protocols from other ...) closed by Nicklas Nordborg
fixed: In 5814: […]
8:46 AM Changeset [5814] by Nicklas Nordborg
Fixes #1224: The RNAseq library preperation wizard display protocols …
8:44 AM Ticket #1224 (The RNAseq library preperation wizard display protocols from other ...) created by Nicklas Nordborg
And unfortunately, the MIPs protocol is selected as default.

Jan 22, 2020:

12:53 PM Ticket #1223 (Implement an option to skip labels for the Histology specimen in the ...) closed by Nicklas Nordborg
fixed: In 5813: […]
12:53 PM Changeset [5813] by Nicklas Nordborg
Fixes #1223: Implement an option to skip labels for the Histology …
12:52 PM Ticket #1223 (Implement an option to skip labels for the Histology specimen in the ...) created by Nicklas Nordborg
The Histology part of the pipeline will be paused for some time sp the …

Jan 16, 2020:

8:35 AM Changeset [5812] by Nicklas Nordborg
References #1221: Display more information in the Variant summary …
8:33 AM Changeset [5811] by Nicklas Nordborg
References #1222: Remove the G5 distance calculations from the variant …

Jan 15, 2020:

2:48 PM Changeset [5810] by Nicklas Nordborg
References #1222: Remove the G5 distance calculations from the variant …
2:42 PM Ticket #1222 (Remove the G5 distance calculations from the variant calling script) created by Nicklas Nordborg
The calculations depend on the G5 flag that existed in dbSNP 151, but …

Jan 13, 2020:

1:15 PM Changeset [5809] by Nicklas Nordborg
References #1215: Include mutation signature analysis in the variant …

Jan 10, 2020:

10:56 AM Changeset [5808] by Nicklas Nordborg
References #1216: Finalize the "Confirm MIPs demux" wizard The read …
8:18 AM Changeset [5807] by Nicklas Nordborg
References #1215: Include mutation signature analysis in the variant …

Jan 9, 2020:

11:54 AM Changeset [5806] by Nicklas Nordborg
References #1209: Add support for storing TMA specimen Display the …
9:49 AM Changeset [5805] by Nicklas Nordborg
References #1221: Display more information in the Variant summary …
9:17 AM Ticket #1221 (Display more information in the Variant summary dialog) created by Nicklas Nordborg
A dialog that displays some information about filtered variants was …

Jan 8, 2020:

11:28 AM Changeset [5804] by Nicklas Nordborg
References #1216: Finalize the "Confirm MIPs demux" wizard The MIPs …
11:26 AM Ticket #1220 (Auto-analyze in the MIPs pipeline should start the demux) closed by Nicklas Nordborg
fixed: In 5803: […]
11:26 AM Changeset [5803] by Nicklas Nordborg
Fixes #1220: Auto-analyze in the MIPs pipeline should start the demux

Jan 7, 2020:

1:20 PM Ticket #1220 (Auto-analyze in the MIPs pipeline should start the demux) created by Nicklas Nordborg
This has been temporarily disabled due to testing. It seems to be …
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