Mercurial > repos > devteam > pileup_parser
changeset 1:d31417e25765 draft
Uploaded
| author | devteam |
|---|---|
| date | Tue, 03 Jun 2014 12:39:46 -0400 |
| parents | 5c3984014c07 |
| children | ffeb59f7a82d |
| files | pileup_parser.xml pileup_parser_help1.png pileup_parser_help2.png pileup_parser_help3.png pileup_parser_help4.png |
| diffstat | 5 files changed, 4 insertions(+), 4 deletions(-) [+] |
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--- a/pileup_parser.xml Tue Aug 20 11:07:42 2013 -0400 +++ b/pileup_parser.xml Tue Jun 03 12:39:46 2014 -0400 @@ -320,7 +320,7 @@ To call all variants (with no restriction by coverage) with quality above phred value of 20, we will need to set the parameters as follows: -.. image:: ${static_path}/images/pileup_parser_help1.png +.. image:: pileup_parser_help1.png Running the tool with these parameters will return:: @@ -336,7 +336,7 @@ In addition to calling variants, it is often useful to know the quality adjusted coverage. Running the tool with these parameters: -.. image:: ${static_path}/images/pileup_parser_help2.png +.. image:: pileup_parser_help2.png will report everything from the original file:: @@ -355,7 +355,7 @@ If you set the **Print total number of differences?** to **Yes** the tool will print an additional column with the total number of reads where a devinat base is above the quality threshold. So, seetiing parametrs like this: -.. image:: ${static_path}/images/pileup_parser_help3.png +.. image:: pileup_parser_help3.png will produce this:: @@ -371,7 +371,7 @@ Setting **Print quality and base string?** to **Yes** as shown here: -.. image:: ${static_path}/images/pileup_parser_help4.png +.. image:: pileup_parser_help4.png will produce this::