Mercurial > repos > proteore > proteore_id_converter
diff README.rst @ 19:9d758344d36e draft
planemo upload commit 339ab77a83db03409c8001324f10b36ff5b13a39-dirty
| author | proteore |
|---|---|
| date | Wed, 19 Jun 2019 04:38:12 -0400 |
| parents | 5252bbcfbdd7 |
| children |
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--- a/README.rst Fri May 10 10:38:46 2019 -0400 +++ b/README.rst Wed Jun 19 04:38:12 2019 -0400 @@ -63,33 +63,22 @@ Nextprot and OMIM are only available for Human. +.. class:: warningmark + +For Uniprot-AC, only Uniprot-AC reviewed are considered here, except for releases before 27-05-2019 where all uniprot-AC (at the time) are considered. + This tool converts human IDs using file built from: -* HUMAN_9606_idmapping_selected.tab (Uniprot 23/10/2018) - Tarball downloaded from ftp://ftp.uniprot.org/pub/databases/uniprot/current_release/knowledgebase/idmapping/by_organism/ - -* HUMAN_9606_idmapping.dat (Uniprot 23/10/18) - Tarball downloaded from ftp://ftp.uniprot.org/pub/databases/uniprot/current_release/knowledgebase/idmapping/by_organism/ - -* Human uniprot-AC entries reviewed : https://www.uniprot.org/uniprot/?query=reviewed:yes+AND+organism:9606&format=list - - -* nextprot_ac_list_all.txt (Nextprot released on 10/10/2018) - Downloaded from ftp://ftp.nextprot.org/pub/current_release/ac_lists/ - -* MOUSE_10090_idmapping_selected.tab (Uniprot 23/10/2018) - Tarball downloaded from ftp://ftp.uniprot.org/pub/databases/uniprot/current_release/knowledgebase/idmapping/by_organism/ - -* MOUSE_10090_idmapping.dat (Uniprot 23/10/18) - Tarball downloaded from ftp://ftp.uniprot.org/pub/databases/uniprot/current_release/knowledgebase/idmapping/by_organism/ - -* Mouse uniprot-AC entries reviewed : https://www.uniprot.org/uniprot/?query=reviewed:yes+AND+organism:10090&format=list - - -* RAT_10116_idmapping.dat (Uniprot 23/10/18) - Tarball downloaded from ftp://ftp.uniprot.org/pub/databases/uniprot/current_release/knowledgebase/idmapping/by_organism/ - -* RAT_10116_idmapping_selected.tab (Uniprot 23/10/18) - Tarball downloaded from ftp://ftp.uniprot.org/pub/databases/uniprot/current_release/knowledgebase/idmapping/by_organism/ - -* Rat uniprot-AC entries reviewed : https://www.uniprot.org/uniprot/?query=reviewed:yes+AND+organism:10116&format=list +* Current release of Uniprot, for idmapping_selected.tab and idmapping.dat for Human, Mouse and Rat: ftp://ftp.uniprot.org/pub/databases/uniprot/current_release/knowledgebase/idmapping/by_organism +* All previous release of uniprot can be found here: ftp://ftp.uniprot.org/pub/databases/uniprot/previous_releases/ +* **nextprot_ac_list_all.txt (Nextprot released on 13/02/2019 - current)**: ftp://ftp.nextprot.org/pub/current_release/ac_lists/ +* All previous release of **nextprot_ac_list_all.txt** can be foud here: ftp://ftp.nextprot.org/pub/previous_releases/ +* `Human uniprot-AC entries reviewed (05/06/2019) <https://www.uniprot.org/uniprot/?query=reviewed:yes+AND+organism:9606+AND+created:[20120720%20TO%2020190605]&format=list>`_. +* `Mouse uniprot-AC entries reviewed (05/06/2019) <https://www.uniprot.org/uniprot/?query=reviewed:yes+AND+organism:10090+AND+created:[20120720%20TO%2020190605]&format=list>`_. +* `Rat uniprot-AC entries reviewed (05/06/2019) <https://www.uniprot.org/uniprot/?query=reviewed:yes+AND+organism:10116+AND+created:[20120720%20TO%2020190605]&format=list>`_. +* `Human uniprot-AC entries reviewed (08/05/2019) <https://www.uniprot.org/uniprot/?query=reviewed:yes+AND+organism:9606+AND+created:[20120720%20TO%2020190508]&format=list>`_. +* `Mouse uniprot-AC entries reviewed (08/05/2019) <https://www.uniprot.org/uniprot/?query=reviewed:yes+AND+organism:10090+AND+created:[20120720%20TO%2020190508]&format=list>`_. +* `Rat uniprot-AC entries reviewed (08/05/2019) <https://www.uniprot.org/uniprot/?query=reviewed:yes+AND+organism:10116+AND+created:[20120720%20TO%2020190508]&format=list>`_. +* `Human uniprot-AC entries reviewed (10/10/2018) <https://www.uniprot.org/uniprot/?query=reviewed:yes+AND+organism:9606+AND+created:[20120720%20TO%2020181010]&format=list>`_. +* `Mouse uniprot-AC entries reviewed (10/10/2018) <https://www.uniprot.org/uniprot/?query=reviewed:yes+AND+organism:10090+AND+created:[20120720%20TO%2020181010]&format=list>`_. +* `Rat uniprot-AC entries reviewed (10/10/2018) <https://www.uniprot.org/uniprot/?query=reviewed:yes+AND+organism:10116+AND+created:[20120720%20TO%2020181010]&format=list>`_.