Difference between revisions of "SAM or BAM alignment file"
From BioUML platform
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| + | ;File format title | ||
| + | :SAM or BAM alignment file (*.sam, *.bam) | ||
| + | ;Element type | ||
| + | :{{Type link|track}} | ||
| + | ;Plugin | ||
| + | :[[Ru.biosoft.bsa (plugin)|ru.biosoft.bsa (Bio-sequences analyses plugin)]] | ||
| + | |||
== SAM or BAM alignment file (*.sam, *.bam) == | == SAM or BAM alignment file (*.sam, *.bam) == | ||
Import SAM/BAM file | Import SAM/BAM file | ||
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* '''Properties''' – Additional importer parameters | * '''Properties''' – Additional importer parameters | ||
** '''Sequences source''' – Select database to get sequences from or <nowiki>'</nowiki>Custom<nowiki>'</nowiki> to specify sequences location manually | ** '''Sequences source''' – Select database to get sequences from or <nowiki>'</nowiki>Custom<nowiki>'</nowiki> to specify sequences location manually | ||
| − | ** '''Sequence collection''' – | + | ** '''Sequence collection''' – Specify path to folder containing sequences if <nowiki>'</nowiki>Custom<nowiki>'</nowiki> sequences source is selected |
** '''Genome ID string''' – Something like <nowiki>'</nowiki>hg18<nowiki>'</nowiki> or <nowiki>'</nowiki>mm6<nowiki>'</nowiki> | ** '''Genome ID string''' – Something like <nowiki>'</nowiki>hg18<nowiki>'</nowiki> or <nowiki>'</nowiki>mm6<nowiki>'</nowiki> | ||
** '''Create index''' – Create index (can take a long time) | ** '''Create index''' – Create index (can take a long time) | ||
Latest revision as of 17:17, 6 June 2013
- File format title
- SAM or BAM alignment file (*.sam, *.bam)
- Element type
track
- Plugin
- ru.biosoft.bsa (Bio-sequences analyses plugin)
[edit] SAM or BAM alignment file (*.sam, *.bam)
Import SAM/BAM file
[edit] Parameters:
- File to import – Specify file from your computer
- Target – Path in repository to put imported file to
- Properties – Additional importer parameters
- Sequences source – Select database to get sequences from or 'Custom' to specify sequences location manually
- Sequence collection – Specify path to folder containing sequences if 'Custom' sequences source is selected
- Genome ID string – Something like 'hg18' or 'mm6'
- Create index – Create index (can take a long time)
