Mercurial > repos > george-weingart > graphlan_import
changeset 45:789d81a1c389 draft
Uploaded
author | george-weingart |
---|---|
date | Sat, 06 Sep 2014 14:02:24 -0400 |
parents | d3e731ed55b1 |
children | 6c8594d2f7e2 |
files | import2graphlan.xml |
diffstat | 1 files changed, 12 insertions(+), 12 deletions(-) [+] |
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--- a/import2graphlan.xml Sat Sep 06 13:58:26 2014 -0400 +++ b/import2graphlan.xml Sat Sep 06 14:02:24 2014 -0400 @@ -158,7 +158,7 @@ **--max_font_size** MAX_FONT_SIZE Set the maximum font size. Default is 12 - **--annotation_legend**_font_size ANNOTATION_LEGEND_FONT_SIZE + **--annotation_legend_font_size** ANNOTATION_LEGEND_FONT_SIZE Set the font size for the annotation legend. Default is 10 **--abundance_threshold** ABUNDANCE_THRESHOLD @@ -181,27 +181,27 @@ Input data matrix parameters ============================ - --sep SEP + **--sep** SEP - --out_table OUT_TABLE : This is where to write the processed data matrix to file + **--out_table** OUT_TABLE : This is where to write the processed data matrix to file - --fname_row FNAME_ROW : Row number containing the names of the features (default 0, specify -1 if no names are present in the matrix) + **--fname_row** FNAME_ROW : Row number containing the names of the features (default 0, specify -1 if no names are present in the matrix) - --sname_row SNAME_ROW column number containing the names of the samples (default 0, specify -1 if no names are present in the matrix) + **--sname_row** SNAME_ROW column number containing the names of the samples (default 0, specify -1 if no names are present in the matrix) - --metadata_rows METADATA_ROWS Row numbers to use as metadata[default None, meaning no metadata + **--metadata_rows** METADATA_ROWS Row numbers to use as metadata[default None, meaning no metadata - --skip_rows SKIP_ROWS Row numbers to skip (0-indexed, comma separated) from the input file[default None, meaning no rows skipped + **--skip_rows** SKIP_ROWS Row numbers to skip (0-indexed, comma separated) from the input file[default None, meaning no rows skipped - --sperc SPERC Percentile of sample value distribution for sample selection + **--sperc** SPERC Percentile of sample value distribution for sample selection - --fperc FPERC Percentile of feature value distribution for sample selection + **--fperc** FPERC Percentile of feature value distribution for sample selection - --stop STOP Number of top samples to select (ordering based on percentile specified by --sperc) + **--stop** STOP Number of top samples to select (ordering based on percentile specified by --sperc) - --ftop FTOP Number of top features to select (ordering based on percentile specified by --fperc) + **--ftop** FTOP Number of top features to select (ordering based on percentile specified by --fperc) - --def_na DEF_NA Set the default value for missing values [default None which means no replacement] + **--def_na** DEF_NA Set the default value for missing values [default None which means no replacement] Integration ===========