9205fd1ed1
Patch RPS12 detection
2025-05-25 10:31:30 +02:00
534c5c74a8
Patch two bug in the best cluster selection
2025-05-22 05:36:04 +02:00
bf27de1528
Correction of go_rps12 for not passing anymore the sequence as a variable
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2023-05-16 13:39:01 +02:00
785e0a6226
Small patches
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2023-05-15 20:48:44 +02:00
ed5b28b14f
Patch regular patterns
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Former-commit-id: 15ae6fd0b11548a0701c99c9305232d5a238d39d
2023-05-15 14:57:16 +02:00
031e18a8bd
Change translate function to deal with start codons
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Former-commit-id: 58421d7b8dd6855efe9770499e48a4cca6d9e1fd
2023-04-29 07:07:03 +02:00
5a7b869170
Add a better management of and create translation exception when required for initiation codon
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2023-04-29 07:04:09 +02:00
3b43762ced
some blast tricks
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Former-commit-id: 15a6398f751070645cd2b14766abaf209b1222ce
2022-02-17 18:43:15 +01:00
831669433e
Switch to a swissprot based reference database for CDS annotation
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2022-02-16 22:50:17 +01:00
d56aeaf698
Remove extra feature for CDS
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2022-02-14 15:09:17 +01:00
616d5d084b
change tRNA and CDS annotations
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Former-commit-id: 18663d59e90e6d35b029d9087b66723487b8db1d
2021-11-05 09:29:57 +01:00
40feaadd43
Move the script used for clusterizing protein DBs
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2021-06-01 09:53:10 +02:00
15f033332c
Patch a bug leading to a double pseudogene tagging
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2018-11-20 17:39:38 +01:00
a040adb132
Check the translation for stop codon and add a pseudogene qualifier if
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present.
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2018-11-20 15:59:57 +01:00
238b500e1a
Add missing file...
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Former-commit-id: 17cc9616d8835548e996712545d4cc0e1833f90f
2018-01-24 15:13:31 +01:00
08d7c940a4
Patch a bug in the final sequence formating occuring when the input
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sequence has not 60 char per line
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Former-commit-id: 074b4aaac0eac00de9b3b48e75804417ce780a2d
2018-01-18 21:58:50 +01:00
001c1dcac1
For a given protein consider only cluster with at list a score of 95% of
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the best score
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Former-commit-id: f45bb7922f28165fd3baa1bc67bf815a759d1590
2016-10-09 04:24:08 -03:00
87453701b7
Change some parameters in program calls
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Former-commit-id: b15127c8f8a601b33e09daccc645cbb8a1f23a2e
2016-10-06 12:37:57 -03:00
16b5e2927d
Make changes to better detect pseudo genes frameshited and annotate them
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correctly
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2016-10-06 10:06:37 -03:00
860cd217d4
Add the management of pseudogenes
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Former-commit-id: 0d3d69ba351bd174fe08387a474fd1137559e38a
2016-10-06 08:56:45 -03:00
d4da1d01fd
A new set of protein cleaned for the CDS detector prepared using the
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clusterizecore.sh script from the detectors/cds/lib folder.
The CDS detector is now modified to use the clean.fst files.
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2016-10-05 09:31:24 -03:00
20d0bcfbf8
First trial to automatcally cleanup the core CDS database
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2016-04-25 23:41:18 +02:00
ab37af3b03
Add the name of the org.annot pipeline in the CDS inference
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2015-12-18 08:56:55 +01:00
405631f527
cds go_test bug fixed
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2015-11-13 22:37:22 +01:00
9108ce75f1
fixed too many partial CDS bug
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Former-commit-id: 36bdc324d2b9a0491d07d40a7e68a4cf7ea73984
2015-11-10 22:15:01 +01:00
c3c2be254f
go_pass1 moved to bin
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Former-commit-id: b2e3e8200b9e14447b7eeedd70191e10cf4b8a58
2015-11-09 00:58:50 +01:00
0066211385
fixed bug : CDS product not quoted
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2015-11-08 20:43:18 +01:00
8dab2d56b2
CDS detector added
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2015-11-08 14:28:05 +01:00
