I have about 3300 reads from foxmid library and I'd like to maping to a reference sequence, how should I do? I also have some solexa data to improve my sequence quality. Can I use the some software to map or different?
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Originally posted by anyone1985 View PostI have about 3300 reads from foxmid library and I'd like to maping to a reference sequence, how should I do? I also have some solexa data to improve my sequence quality. Can I use the some software to map or different?
I have used it for Solexa, SOLID3, Sanger and 454 data with success.
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Thank you for your answer. Can the SHRiMP output the result in the format of ace? I would like to calculate the sequence quality, too.
Originally posted by Torst View PostSHRiMP will happily align both your Solexa and Sanger reads to your reference sequence, allowing for both indels and substitutions: http://compbio.cs.toronto.edu/shrimp/
I have used it for Solexa, SOLID3, Sanger and 454 data with success.
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Originally posted by anyone1985 View PostYes, I have tried. However, I do not satisfied with the results. I'd like to know some beter way to mapping the reads.
B.
Disclaimer: I may be biased, I wrote MIRA.
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