Hi SEQanswers community,
Bowtie support has just been added to SpliceMap.
Please check the website to download the new version.
http://www-stat.stanford.edu/~kinfai...Map/index.html
With Bowtie support comes some requested features
Let me know what you think of the new input format. I felt that is was much clearer an easier to customize. However, your feedback is important to me.
Please let me know if you find any part hard to use or unintuitive. I will see what I can do.
Also, after further testing, the "Try Harder" option in Bowtie didn't seem to make much difference... Currently, it is default to on. However, if you want to save 10-15% of your running time, it is probably ok to turn it off.
Next, I will add read quality to the SAM output and hopefully (if there are no more major usability issues) have some time to work on algorithmic improvements.
Bowtie support has just been added to SpliceMap.
Please check the website to download the new version.
http://www-stat.stanford.edu/~kinfai...Map/index.html
With Bowtie support comes some requested features
- Support for FASTQ and FASTA file formats
- Mac OS X support
- Less memory usage when sorting SAM file
- Faster
Let me know what you think of the new input format. I felt that is was much clearer an easier to customize. However, your feedback is important to me.
Please let me know if you find any part hard to use or unintuitive. I will see what I can do.
Also, after further testing, the "Try Harder" option in Bowtie didn't seem to make much difference... Currently, it is default to on. However, if you want to save 10-15% of your running time, it is probably ok to turn it off.
Next, I will add read quality to the SAM output and hopefully (if there are no more major usability issues) have some time to work on algorithmic improvements.
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