Mercurial > repos > bornea > saint_preprocessing
changeset 23:59b2553c6db5 draft
Uploaded
| author | bornea |
|---|---|
| date | Mon, 18 Apr 2016 10:07:50 -0400 |
| parents | d3bb9de6913b |
| children | 85c19ee579d6 |
| files | SAINT_preprocessing.xml |
| diffstat | 1 files changed, 7 insertions(+), 7 deletions(-) [+] |
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--- a/SAINT_preprocessing.xml Sat Apr 16 16:36:48 2016 -0400 +++ b/SAINT_preprocessing.xml Mon Apr 18 10:07:50 2016 -0400 @@ -81,7 +81,7 @@ a *Bait File, Prey File,* and *Inter File* for SAINTexpress analysis. 1) MaxQuant or Scaffold -^^^^^^^^^^^^^^^^^^^^^^^ +----------------------- APOSTL is able to recognize either a Scaffold *Samples Report* file (tab-delimited txt file) or the *peptides.txt* file output in the @@ -89,12 +89,12 @@ files. Please designate which one is being provided. 2) Scaffold or MaxQuant File Input -^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ +---------------------------------- Select the corresponding *Samples Report* or *peptides.txt* here. 3) Create Prey File -^^^^^^^^^^^^^^^^^^^ +------------------- Select whether or not you would like APOSTL to generate a prey file. @@ -108,7 +108,7 @@ file can be used for both SAINTexpress runs. 4) Provide Uniprot FASTA database -^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ +--------------------------------- Please specify a FASTA file containing the protein sequence. You can download the latest release of Uniprot's reviewed sequences (Swiss-Prot) @@ -118,7 +118,7 @@ database searches during peptide and protein ID. 5) Are You Providing Your Own Bait File? -^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ +---------------------------------------- Users have two options for providing a *Bait* file. If you would like to create your own *Bait* file, select Yes and designate the file below. If @@ -126,7 +126,7 @@ within Galaxy, please select No and proceed to the **Bait Create** tool. 6) Bait File -^^^^^^^^^^^^ +------------ If you selected Yes above, please specify the *Bait* file you would like to provide. If you selected No above, ignore this argument and proceed @@ -137,7 +137,7 @@ whitespace characters (e.g. spaces) or dashes. 7) Bait Create -^^^^^^^^^^^^^^ +-------------- Using the **Bait Create** tool, you can create your *bait.txt* file.