dc9867b675
add new obitools script to convert cns fasta files to obi fasta files (add ; to headers)
2009-09-18 17:09:34 +00:00
f304309fdd
Patch fasta reader to accelerate fasta header parsing
2009-09-18 17:07:06 +00:00
22270b2602
Patch the rawiteritems function from WrappedBioSequence
2009-09-18 17:06:14 +00:00
5c9e608ccd
New obitools script to analyze cDNA 454 sequences
2009-09-18 17:05:05 +00:00
9fcdb31d65
changed name of saved rawfiles to remove the gz extension
2009-09-18 14:24:42 +00:00
657bf134e8
patch a bug in taxonomy filter
2009-09-18 13:57:24 +00:00
b0f90494bf
Add option to save a copy of the embl file
2009-09-18 13:22:34 +00:00
d02ca76c66
2009-07-27 22:39:07 +00:00
79dbbb8a6b
Add new version of function fastaUniq taking into account the merge attribute
2009-07-27 22:38:23 +00:00
7219a11d3d
patch syntax bug
2009-07-27 17:51:52 +00:00
1568bec537
Add new script fasta2tab
2009-07-27 17:49:26 +00:00
d2a97eeb7e
patch syntax bug
2009-07-27 17:37:57 +00:00
ca485e9ebe
Add new version of function fastaUniq taking into account the merge attribute
2009-07-27 17:35:44 +00:00
0216e59af1
Add a merge option on fsyaUniq.py
2009-07-27 17:13:22 +00:00
f030be4801
Save dump in binary format
2009-07-27 16:26:21 +00:00
77e4935a41
Change taxonomy option
2009-07-27 16:14:48 +00:00
8528ddeadc
* class OBOEntry, ajout de l'attribut stanza self["stanza"]
...
* class OBOTerm:
* ajout de la propriété stanza + sa méthode getter
* test obsolete: suppression de la contrainte 'is_a'... slot pas obligatoire pour un term obsolete
* methode getReplaceBy renommée en getReplacedBy
2009-07-24 11:31:44 +00:00
10082b2c15
new version of the api documentation in html
2009-07-22 08:50:44 +00:00
f5e5168ec8
clean html api doc
2009-07-22 08:47:05 +00:00
2080123867
Split taxonomy options in two sets
2009-07-21 18:27:04 +00:00
17c21ba875
Change ecotag parser to conform to the new ecotag format
2009-07-21 18:26:12 +00:00
2786acd295
Rename fastaEditTag.py to fastaAnnotate.py
2009-06-23 16:04:22 +00:00
43523d5859
2009-06-19 12:52:41 +00:00
29d1134181
delete RDP2 database release from archive
2009-06-19 12:49:16 +00:00
30e149a9ff
2009-06-18 12:06:39 +00:00
ef88897465
2009-05-13 22:08:05 +00:00
5f4c894bab
add fastaAddTaxid.py script
2009-03-19 21:59:08 +00:00
619eebf69c
draft loi hypergeometrique
2009-02-12 12:40:06 +00:00
ac09697b7b
Patch the -a option
2008-12-17 12:32:01 +00:00
0d0067bcc4
2008-12-16 14:48:28 +00:00
75b1f29c89
un fichier test
2008-12-16 14:44:45 +00:00
7cec520cb4
Commit of package utils.iterator
2008-11-04 13:10:56 +00:00
84f104677e
Path bug related with Wrapped bioseq introduction
2008-10-31 08:42:59 +00:00
cd81a19121
Add input output map
2008-10-24 21:58:06 +00:00
3b3623ec87
Add two new scripts to analyse ecotag results
2008-10-21 16:16:57 +00:00
e970779f8c
Add new parser for ecotag result files
2008-10-21 16:16:27 +00:00
7196e6901f
add function to manage input file informations
2008-10-20 10:37:41 +00:00
a831dc146d
bug correction in universaltell and filesize function
2008-10-20 10:35:53 +00:00
98b677a8b1
GeneOntology Access file reader
2008-10-20 10:33:15 +00:00
3d20fb3e30
loi hypergeometrique
2008-10-20 10:31:50 +00:00
e53c39bb8b
2008-10-09 08:47:41 +00:00
9734a0dc71
2008-10-08 14:59:50 +00:00
dcc7588e37
* use obitools/obo/go/parser.py, a specific OBO Go parser
...
* got from microbi implementation (FlatFile) ...
2008-10-08 14:41:58 +00:00
db529fac5f
2008-10-08 13:58:09 +00:00
df2c09d494
specify the OBO parser to the GeneOntology OBO format
...
GOTerm inherits OBOTerm
2008-10-08 08:34:07 +00:00
cea1cb2fbb
small bugs patches
2008-10-07 13:50:12 +00:00
004a5639d1
_getNamespace in OBOTerm
2008-10-07 11:01:48 +00:00
bcbbaea78c
a 'namespace' property in the OBO format
2008-10-06 16:33:54 +00:00
fa0636029a
Parser OBO + contraintes GO - corrections de Sophie
2008-10-05 10:43:11 +00:00
4d4d53a37e
* OBOTerm objects newly own 'namespace' and 'relationship' attributes
...
* API changed from 'replace_by' into 'replaced_by' OBOTerm attribute
* manage some None returns into getters
2008-10-03 16:02:06 +00:00
