User: Jessica Hunter

Reputation:
40
Status:
New User
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Last seen:
8 years, 3 months ago
Joined:
8 years, 3 months ago
Email:
h*****@ohsu.edu

Posts by Jessica Hunter

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Answer: A: read coverage per transcript for RNASeq
... My session info is: > sessionInfo() R version 2.9.1 (2009-06-26) x86_64-unknown-linux-gnu locale: LC_CTYPE=en_US.UTF-8;LC_NUMERIC=C;LC_TIME=en_US.UTF-8;LC_COLLATE=en_US .UTF-8;LC_MONETARY=C;LC_MESSAGES=en_US.UTF-8;LC_PAPER=en_US.UTF-8;LC_N AME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_US. ...
written 8.3 years ago by Jessica Hunter40
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Comment: C: read coverage per transcript for RNASeq
... Thanks for your help. The command for filtering for quality worked perfectly. As for the coverage, by 85%, I mean I want to figure out which transcript sequences I used as a reference have at least 85% of their sequence aligning to one or more reads. And, yes, 'chromosome(aln)' gives me the list ...
written 8.3 years ago by Jessica Hunter40
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read coverage per transcript for RNASeq
... Hello all. I have short read sequences for RNASeq that I have then aligned to the reference transcript sequences. The reads are from a Solexa platform and they were aligned using MAQ. I have imported the data using ShortReads (readAligned) and all looks good. However, I am interested in limiti ...
rnaseq coverage process shortread written 8.3 years ago by Jessica Hunter40 • updated 8.3 years ago by Martin Morgan ♦♦ 21k
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R-2.9.1/Bioconductor on RedHat Enterprise 5.3
... Hello all. I am a long-term R user who has recently switched platforms from Windows to Linux and I am having a hard time with the syntax difference. I am stuck on something that is likely simple, but I am stuck all the same. I have aligned short reads using Maq 0.7.1 in RedHat and I have the ‘ma ...
written 8.3 years ago by Jessica Hunter40 • updated 8.3 years ago by Martin Morgan ♦♦ 21k

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