Difference between revisions of "Priority List of Topics"
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[http://dl.dropbox.com/u/4936834/PWM_scan.zip PWM Scan] - a perl script that scans a genome or long DNA sequence for motifs that fit into a specific position weight matrix's parameters. Includes a quicker scan and a longer scan that uses every possible window. | [http://dl.dropbox.com/u/4936834/PWM_scan.zip PWM Scan] - a perl script that scans a genome or long DNA sequence for motifs that fit into a specific position weight matrix's parameters. Includes a quicker scan and a longer scan that uses every possible window. | ||
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| + | [http://dl.dropbox.com/u/4936834/blastparse.py Blast Parse] - python script that will parse local blast results. Input should be the tab delimiter format as follows: QueryName Subject QueryEnd QueryStart SubjectEnd. Output can sort by any one of these elements. The default setting is to sort by Subject (in our case contigs or scaffolds). | ||
==Lauren== | ==Lauren== | ||
Revision as of 19:20, 3 February 2011
Contents
perl scripts for genome analysis
PWM Scan - a perl script that scans a genome or long DNA sequence for motifs that fit into a specific position weight matrix's parameters. Includes a quicker scan and a longer scan that uses every possible window.
Blast Parse - python script that will parse local blast results. Input should be the tab delimiter format as follows: QueryName Subject QueryEnd QueryStart SubjectEnd. Output can sort by any one of these elements. The default setting is to sort by Subject (in our case contigs or scaffolds).
Lauren
Glucose Metabolism
- Acid Invertase
Dylan
Myb Transcription Factors
Laura
rRNA Genes
Lexi
Puneet
Leland
Mitochondrial/Chloroplast Separation
Will
Jared
Methytransferases and RNAi Pathways
Additional Possible Topics
Lignins
Pectins
Tanins
