[BioC] questions about matchPattern and vmatchPattern

[wang peter]

> thx for your reply
> i donot think the manual can answer my question
>
>> For example, see inline:
>>
>>> subject = "TGCATTT"
>>> Rpattern = "TGCAATTT"
>>> result <- matchPattern(Rpattern, subject, max.mismatch= 4, min.mismatch=0)
>>> result
>>>   Views on a 7-letter BString subject
>>> subject: TGCATTT
>>> views:
>>>     start end width
>>> [1]     0   7     8 [ TGCATTT]
>>> [2]     1   8     8 [TGCATTT ]
>
> using my ass,i think it is position on the subject. but 0 and 8 are
> out of border of subject
>
> absolutely i know what is MIndex object
> but you never answer me
> if i use
>
> startIndex(result)
>
> it will return all of hits of on your subject or just the first one????



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shan gao
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