Difference between revisions of "Priority List of Topics"
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| + | ==[http://gcat.davidson.edu/spring2010/project2/ perl scripts for genome analysis]== | ||
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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/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). Note: to run, edit input file name to match your input file. Then type "python /pathto/blastparse.py" from terminal | ||
| + | |||
==Lauren== | ==Lauren== | ||
| − | '''ATP Synthase''' | + | '''[[ATP Synthase]]''' |
| + | |||
| − | '''Glucose Metabolism''' | + | '''[[Glucose Metabolism]]''' |
- Acid Invertase | - Acid Invertase | ||
| − | ==Dylan== | + | |
| + | ==[[Dylan]]== | ||
'''Myb Transcription Factors''' | '''Myb Transcription Factors''' | ||
| − | |||
| − | ==Laura== | + | ==[[Laura]]== |
'''rRNA Genes''' | '''rRNA Genes''' | ||
| + | |||
==Lexi== | ==Lexi== | ||
| − | '''pH Regulation''' | + | '''[[pH Regulation]]''' |
| + | |||
==Puneet== | ==Puneet== | ||
| − | '''tRNA Genes''' | + | '''[[tRNA Genes]]''' |
| + | |||
==Leland== | ==Leland== | ||
| − | '''Mitochondrial/Chloroplast Separation''' | + | '''[[Mitochondrial/Chloroplast Separation]]''' |
| + | |||
==Will== | ==Will== | ||
| − | ''' | + | |
| + | '''[[CYP450s]]''' | ||
==Jared== | ==Jared== | ||
| − | ''' | + | '''[[Methytransferases and RNAi Pathways]]''' |
| + | |||
| + | ==Additional Possible Topics== | ||
| + | '''Lignins''' | ||
| + | |||
| + | '''Pectins''' | ||
| − | ''' | + | '''[[Tannins]]''' |
Latest revision as of 15:40, 8 March 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). Note: to run, edit input file name to match your input file. Then type "python /pathto/blastparse.py" from terminal
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
