Difference between revisions of "Task3 Hemochromatosis Protocol"
Bernhoferm (talk | contribs) (→Data Acquisition) |
Bernhoferm (talk | contribs) (→Secondary Structure) |
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=== Secondary Structure === |
=== Secondary Structure === |
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| + | |||
| + | ReProf predictions: |
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| + | <source lang="bash"> |
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| + | #!/bin/bash |
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| + | |||
| + | #Secondary Structure |
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| + | cd /mnt/home/student/bernhoferm/mstrprkt/task3/ss/fasta/ |
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| + | |||
| + | reprof -i Q30201.fasta -o ../pred/ &> ../Q30201.log |
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| + | reprof -i P10775.fasta -o ../pred/ &> ../P10775.log |
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| + | reprof -i Q9X0E6.fasta -o ../pred/ &> ../Q9X0E6.log |
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| + | reprof -i Q08209.fasta -o ../pred/ &> ../Q08209.log |
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| + | </source> |
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=== Disorder === |
=== Disorder === |
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Revision as of 11:59, 17 May 2012
Contents
Data Acquisition
Retrieve all sequences: <source lang="bash">
- !/bin/bash
- Secondary Structure
cd /mnt/home/student/bernhoferm/mstrprkt/task3/ss/fasta/
wget http://www.uniprot.org/uniprot/Q30201.fasta wget http://www.uniprot.org/uniprot/P10775.fasta wget http://www.uniprot.org/uniprot/Q9X0E6.fasta wget http://www.uniprot.org/uniprot/Q08209.fasta
- Disorder
cd /mnt/home/student/bernhoferm/mstrprkt/task3/disorder/fasta/
wget http://www.uniprot.org/uniprot/Q30201.fasta wget http://www.uniprot.org/uniprot/P10775.fasta wget http://www.uniprot.org/uniprot/Q9X0E6.fasta wget http://www.uniprot.org/uniprot/Q08209.fasta
- Transmembrane Helices
cd /mnt/home/student/bernhoferm/mstrprkt/task3/tmh/fasta/
wget http://www.uniprot.org/uniprot/Q30201.fasta wget http://www.uniprot.org/uniprot/P35462.fasta wget http://www.uniprot.org/uniprot/Q9YDF8.fasta wget http://www.uniprot.org/uniprot/P47863.fasta
- Signal Peptides
cd /mnt/home/student/bernhoferm/mstrprkt/task3/sp/fasta/
wget http://www.uniprot.org/uniprot/Q30201.fasta wget http://www.uniprot.org/uniprot/P02768.fasta wget http://www.uniprot.org/uniprot/P47863.fasta wget http://www.uniprot.org/uniprot/P11279.fasta </source>
Secondary Structure
ReProf predictions: <source lang="bash">
- !/bin/bash
- Secondary Structure
cd /mnt/home/student/bernhoferm/mstrprkt/task3/ss/fasta/
reprof -i Q30201.fasta -o ../pred/ &> ../Q30201.log reprof -i P10775.fasta -o ../pred/ &> ../P10775.log reprof -i Q9X0E6.fasta -o ../pred/ &> ../Q9X0E6.log reprof -i Q08209.fasta -o ../pred/ &> ../Q08209.log </source>
