c5b92799b1
Detect number of cores
2025-05-24 08:46:13 +02:00
3589bf03eb
Update Swissprot database
2025-05-22 02:23:26 +02:00
4b71fe8c4c
Changes to be committed:
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modified: .gitignore
new file: data/cds/sp_chlorodb/parameters.sh
deleted: data/ir/LSC_RefDB.fasta
deleted: data/ir/SSC_RefDB.fasta
modified: detectors/cds/bin/go_cds.sh
modified: detectors/normalize/lib/lookforIR.lib.sh
modified: detectors/normalize/lib/selectIR.py
modified: organnot/Dockerfile
new file: organnot/README.md
new file: organnot/dorgannot
deleted: ports/.DS_Store
deleted: src/ncbiblast/binaries/.gitignore
deleted: src/prokov/lxpack/tests/S.fasta
deleted: src/prokov/lxpack/tests/St.fasta
deleted: src/prokov/lxpack/tests/Stt.fasta
deleted: src/prokov/lxpack/tests/aS.fasta
deleted: src/prokov/lxpack/tests/aSt.fasta
deleted: src/prokov/lxpack/tests/aStt.fasta
deleted: src/prokov/lxpack/tests/aaS.fasta
deleted: src/prokov/lxpack/tests/aaSt.fasta
deleted: src/prokov/lxpack/tests/aaStt.fasta
new file: src/repseek/repseek-2014.09.tgz
2025-03-05 21:56:39 +01:00
988c32fe88
mode delete
2025-03-01 17:55:11 +01:00
629a079fb8
Delete chlorodb
2025-03-01 17:54:27 +01:00
2c012eec8e
first batch
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Former-commit-id: 1eecb206a17c4aff21d1170b48db134ce3c4f14e
2025-03-01 16:15:28 +01:00
831669433e
Switch to a swissprot based reference database for CDS annotation
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Former-commit-id: 406f41a7cb2db14ea832480b86f72a11d3b0ab4a
2022-02-16 22:50:17 +01:00
2c1d15c227
Adds the detection of the RPS12 gene (Gene with trans-splicing)
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Former-commit-id: 309796fcdac8cf4b6379eae6418dcf1d6db21bb3
2021-11-03 13:19:01 +01:00
5a1c8283db
Freshly regerenrated CAU tRNA reference library with the new tool script
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Former-commit-id: a1db9d37bba3adf1100c4418b9211aa49aa00da7
2018-04-05 18:31:49 +02:00
c691818059
Changes in .gitignore
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Former-commit-id: bf7a58dcf96db9f8c132977aa7d3f6af97cce0f5
2018-04-05 18:15:40 +02:00
962ff827dc
New version of the CAU tRNA reference database
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Former-commit-id: 15ec72ca1243c88066c55e8f3655c1da929c25bd
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2018-04-05 17:56:45 +02:00
a4147f27e2
Add ignore file
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2016-10-09 01:11:19 -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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Former-commit-id: 3015ad50d25248fb117ab00e816b00fde1f9ba1d
2016-10-05 09:31:24 -03:00
8113b80d47
Add annotation of nuclear rDNA cistron
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2016-05-02 10:56:40 +02:00
e4d6a8484d
cds/tools/chlorodb added
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2015-11-13 17:41:18 +01:00
9c72a83a92
data sources for chlorodb added
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2015-11-11 15:19:50 +01:00
9b1474ddd5
data sources for chlorodb added
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2015-11-11 15:18:42 +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
8dab2d56b2
CDS detector added
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2015-11-08 14:28:05 +01:00
01c5880ace
First version including the rRNA detector
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Former-commit-id: 94a2e642328eb679660c6ac5a6cb6803c2083632
2015-10-12 07:15:08 -03:00
6015339839
First version of the scripts for building the CAU tRNA database
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Former-commit-id: 8af464a0786f81dddf795f0cbda9ada9974808bf
2015-10-10 19:12:02 -03:00
b75035064c
Patch building of the Single copy reference DB to make a single blast
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database for Large and Small Single copy
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2015-10-07 12:29:48 -03:00
cbc32a6326
Add reference databases for LSC and SSC
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2015-10-07 11:36:20 -03:00
d298385685
First commit - second part
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Former-commit-id: 118417735d2055683607df9809c9b721cc1b1bab
2015-10-02 21:13:16 +02:00
