Mercurial > repos > pieterlukasse > prims_proteomics
annotate README.rst @ 17:40ec8770780d
* Added support for pepxml (and more specifically for
ProteomeDiscoverer 1.4). Tested with ProteomeDiscoverer 1.4 pepxml.
* Improved HTML report of NapQ tool.
* Fixed issue that was preventing SEDMAT matching from running
in parallel/multi-threaded.
| author | pieter.lukasse@wur.nl |
|---|---|
| date | Mon, 14 Apr 2014 17:11:33 +0200 |
| parents | d50f079096ee |
| children |
| rev | line source |
|---|---|
| 0 | 1 PRIMS-proteomics toolset & Galaxy wrappers |
| 2 ========================================== | |
| 3 | |
| 4 Proteomics module of Plant Research International's Mass Spectrometry (PRIMS) toolsuite. | |
| 5 This toolset consists of custom tools to enable data processing and | |
| 6 protein inference for labeled and label-free Mass Spectrometry proteomics data. | |
| 7 | |
| 8 Can be used in combination with PRIMS-MASSCOMB (prims_masscomb package) and | |
| 9 with PRIMV-visualization (primv_visualization package). | |
| 10 | |
| 11 Copyright 2010-2013 by Pieter Lukasse, Plant Research International (PRI), | |
| 12 Wageningen, The Netherlands. All rights reserved. See the license text below. | |
| 13 | |
| 14 Galaxy wrappers and installation are available from the Galaxy Tool Shed at: | |
| 15 http://toolshed.g2.bx.psu.edu/view/pieterlukasse/prims_proteomics | |
| 16 | |
| 17 History | |
| 18 ======= | |
| 19 | |
| 20 ============== ====================================================================== | |
| 21 Date Changes | |
| 22 -------------- ---------------------------------------------------------------------- | |
|
17
40ec8770780d
* Added support for pepxml (and more specifically for
pieter.lukasse@wur.nl
parents:
0
diff
changeset
|
23 April 2014 * Added support for pepxml (and more specifically for |
|
40ec8770780d
* Added support for pepxml (and more specifically for
pieter.lukasse@wur.nl
parents:
0
diff
changeset
|
24 ProteomeDiscoverer 1.4). Tested with ProteomeDiscoverer 1.4 pepxml. |
|
40ec8770780d
* Added support for pepxml (and more specifically for
pieter.lukasse@wur.nl
parents:
0
diff
changeset
|
25 * Improved HTML report of NapQ tool. |
|
40ec8770780d
* Added support for pepxml (and more specifically for
pieter.lukasse@wur.nl
parents:
0
diff
changeset
|
26 * Fixed issue that was preventing SEDMAT matching from running |
|
40ec8770780d
* Added support for pepxml (and more specifically for
pieter.lukasse@wur.nl
parents:
0
diff
changeset
|
27 in parallel/multi-threaded. |
| 0 | 28 January 2014 * first release via Tool Shed |
| 29 November 2013 * multiple tools used internally at PRI | |
| 30 end 2011 * first tool | |
| 31 ============== ====================================================================== | |
| 32 | |
| 33 Tool Versioning | |
| 34 =============== | |
| 35 | |
| 36 PRIMS tools will have versions of the form X.Y.Z. Versions | |
| 37 differing only after the second decimal should be completely | |
| 38 compatible with each other. Breaking changes should result in an | |
| 39 increment of the number before and/or after the first decimal. All | |
| 40 tools of version less than 1.0.0 should be considered beta. | |
| 41 | |
| 42 | |
| 43 Bug Reports & other questions | |
| 44 ============================= | |
| 45 | |
| 46 For the time being issues can be reported via the contact form at: | |
| 47 http://www.wageningenur.nl/en/Persons/PNJ-Pieter-Lukasse.htm | |
| 48 | |
| 49 Developers, Contributions & Collaborations | |
| 50 ========================================== | |
| 51 | |
| 52 If you wish to join forces and collaborate on some of the | |
| 53 tools do not hesitate to contact Pieter Lukasse via the contact form above. | |
| 54 | |
| 55 | |
| 56 License (Apache, Version 2.0) | |
| 57 ============================= | |
| 58 | |
| 59 Copyright 2013 Pieter Lukasse, Plant Research International (PRI). | |
| 60 | |
| 61 Licensed under the Apache License, Version 2.0 (the "License"); | |
| 62 you may not use this software except in compliance with the License. | |
| 63 You may obtain a copy of the License at | |
| 64 | |
| 65 http://www.apache.org/licenses/LICENSE-2.0 | |
| 66 | |
| 67 Unless required by applicable law or agreed to in writing, software | |
| 68 distributed under the License is distributed on an "AS IS" BASIS, | |
| 69 WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. | |
| 70 See the License for the specific language governing permissions and | |
| 71 limitations under the License. | |
| 72 |