Mercurial > repos > melpetera > generic_filter
diff GalFilter/generic_filter.xml @ 3:cfd7c4aa5c26 draft default tip
Uploaded
author | melpetera |
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date | Fri, 03 Jan 2020 04:09:28 -0500 |
parents | 12cf1eed21f4 |
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--- a/GalFilter/generic_filter.xml Tue Jun 27 05:57:04 2017 -0400 +++ b/GalFilter/generic_filter.xml Fri Jan 03 04:09:28 2020 -0500 @@ -1,4 +1,4 @@ -<tool id="generic_filter" name="Generic_Filter" version="2017.06"> +<tool id="generic_filter" name="Generic_Filter" version="2020.01"> <description>Removes elements according to numerical or qualitative values</description> <requirements> <requirement type="package" version="1.1_4">r-batch</requirement> @@ -142,12 +142,14 @@ .. class:: infomark -**Authors** Marion Landi and Melanie Petera +**Authors:** +Melanie Petera for original R code - Marion Landi and Melanie Petera for original Galaxy wrapper +**Maintainer:** Melanie Petera (PFEM - INRAE - MetaboHUB) --------------------------------------------------- ============== -Generic_Filter +Generic Filter ============== ----------- @@ -164,7 +166,7 @@ .. image:: filter.png - :width: 800 + :width: 700 @@ -175,7 +177,7 @@ +----------------------------+------------+ | Parameter : num + label | Format | +============================+============+ -| 1 : Data Matrix file | tabular | +| 1 : Data matrix file | tabular | +----------------------------+------------+ | 2 : Sample metadata file | tabular | +----------------------------+------------+ @@ -194,7 +196,7 @@ | If 'yes' (not default): execution deletes all samples or variables (according to selection) for which the designated | numerical parameter ("Name of the column to remove" field) equals the selected range of values (depending on the "Interval of values to remove" chosen). | To delete multiple independent intervals of value from the same parameter, it is necessary to add as many times as necessary - | the corresponding column via the button "Add new Identify the parameter to filter". + | the corresponding column via the "Insert Identify the parameter to filter" button. | *On file (only if 'yes')* | Choice between sample and variable filtering (referring to the input file containing the factor). @@ -218,7 +220,7 @@ | | *Notes:* -| - these parameters can be used several times using the "Add new Identify the parameter to filter" button +| - these parameters can be used several times using the "Insert Identify the parameter to filter" button | - Numerical filter does not remove NA values; if you want to suppress them, use the Qualitative filter below | @@ -227,7 +229,7 @@ | If 'yes' (not default): execution deletes all data samples or variables (according to selection) for which the designated | factor ("Name of the column to remove" field) equals the selected level ("Remove factor when" field). | To delete multiple values of the same factor, it is necessary to add as many times as necessary the corresponding factor - | via the button "Add new Removing a level in factor". + | via the "Insert Removing a level in factor" button. | *On file (only if 'yes')* | Choice between sample and variable filtering (referring to the input file containing the factor). @@ -243,7 +245,7 @@ | | *Notes:* -| - these parameters can be used several times using the "Add new Removing a level in factor" button +| - these parameters can be used several times using the "Insert Removing a level in factor" button | - this filter can be used to filter NA in numerical parameters, or to remove a specific numerical value | @@ -255,7 +257,7 @@ dataMatrix | tabular output - | Identical to the input Data Matrix file with the sample columns and variable lines deleted according to specified filters + | Identical to the input Data matrix file with the sample columns and variable lines deleted according to specified filters | sampleMetadata @@ -271,14 +273,18 @@ --------------------------------------------------- ---------------- -Working example ---------------- +---------------------- +Additional information +---------------------- .. class:: warningmark -Soon see the corresponding "Page" +For more information about input files, refer to the corresponding "W4M HowTo" page: + | `W4M table format for Galaxy <http://workflow4metabolomics.org/sites/workflow4metabolomics.org/files/files/w4m_TableFormatForGalaxy_150908.pdf>`_ + | + + </help> <citations>