search

BSSeeker / BSseeker2

A versatile aligning pipeline for bisulfite sequencing data
http://pellegrini.mcdb.ucla.edu/BS_Seeker2/
MIT License
61 stars 25 forks source link

typo in README.md #48

Open wbvguo opened 2 years ago

wbvguo commented 2 years ago

Hi,

I noticed the following typo in the documentation: 

[local alignment](http://bowtie-bio.sourceforge.net/bowtie2/manual.shtml#local-alignment-example) (default for bowtie2)

the default mode of bowite2 is end-to-end, according to its documentation

By default, Bowtie 2 performs end-to-end read alignment. That is, it searches for alignments involving all of the read characters. This is also called an "untrimmed" or "unclipped" alignment.

When the --local option is specified, Bowtie 2 performs local read alignment. In this mode, Bowtie 2 might "trim" or "clip" some read characters from one or both ends of the alignment if doing so maximizes the alignment score.