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Package Bio :: Package expressions :: Module hmmpfam |
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Martel expression for the hmmpfam database search program in hmmer.
This has been tested with version 2.2g. I should also make it work with 2.1.1 output.
XXX This isn't completely finished and doesn't do everything quite right. The main two problems being that it isn't well tested for a wide variety of outputs and that the family line is not parsed into it's respective parts (see multitude of comments on this below).Variable Summary | |
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Seq |
alignment_header = <Martel.Expression.Seq instance at 0x...
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Seq |
copyright = <Martel.Expression.Seq instance at 0x713bb73...
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Seq |
domain_align_header = <Martel.Expression.Seq instance at...
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Seq |
domain_align_middle = <Martel.Expression.Seq instance at...
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Seq |
domain_align_top = <Martel.Expression.Seq instance at 0x...
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Seq |
domain_alignment = <Martel.Expression.Seq instance at 0x...
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Seq |
domain_header = <Martel.Expression.Seq instance at 0x713...
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Seq |
domain_hit_line = <Martel.Expression.Seq instance at 0x7...
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Seq |
family_header = <Martel.Expression.Seq instance at 0x713...
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Seq |
family_hit_line = <Martel.Expression.Seq instance at 0x7...
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Seq |
files = <Martel.Expression.Seq instance at 0x713bbb48>
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HeaderFooter |
format = <Martel.Expression.HeaderFooter instance at 0x7...
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Group |
header = <Martel.Expression.Group instance at 0x713bbaf8...
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Seq |
match_symbols = <Martel.Expression.Seq instance at 0x713...
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MaxRepeat |
model_name = <Martel.Expression.MaxRepeat instance at 0x...
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Seq |
no_hit_line = <Martel.Expression.Seq instance at 0x713b0...
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Seq |
program_description = <Martel.Expression.Seq instance at...
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Seq |
program_version = <Martel.Expression.Seq instance at 0x7...
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Group |
record = <Martel.Expression.Group instance at 0x713c2e68...
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Seq |
record_end = <Martel.Expression.Seq instance at 0x713c2d...
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Seq |
rf_line = <Martel.Expression.Seq instance at 0x713bd710>
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Seq |
sequence_info = <Martel.Expression.Seq instance at 0x713...
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Alt |
symbol_forward = <Martel.Expression.Alt instance at 0x71...
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Alt |
symbol_reverse = <Martel.Expression.Alt instance at 0x71...
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Variable Details |
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alignment_header
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copyright
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domain_align_header
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domain_align_middle
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domain_align_top
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domain_alignment
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domain_header
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domain_hit_line
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family_header
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family_hit_line
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files
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format
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header
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match_symbols
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model_name
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no_hit_line
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program_description
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program_version
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record
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record_end
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rf_line
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sequence_info
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symbol_forward
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symbol_reverse
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Generated by Epydoc 2.1 on Thu Aug 10 20:05:41 2006 | http://epydoc.sf.net |