User: Li, Jilong (MU-Student)

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Posts by Li, Jilong (MU-Student)

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Comment: C: How To Get Reads Counts From Cufflins?
... Dear Jeremy, Sorry, I didn't expressed my question clearly. I got the FPKM normalized values for each gene from cufflinks. And I want to get the original reads counts that were not normalized from cufflinks. Could you please tell me how to get those? Thank you very much! Victor _ ...
written 5.8 years ago by Li, Jilong (MU-Student)80
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How To Get Reads Counts From Cufflins?
... Hi all, I got the normalized values (FPKM) from cufflinks. And I want to get relative reads counts. How can I do that? Another question: how does cufflinks handle isoform genes while calculating the reads counts? Or what papers can help me understand this? Thank you very much! Victor ...
cufflinks rna-seq written 5.8 years ago by Li, Jilong (MU-Student)80 • updated 5.8 years ago by Jeremy Goecks2.2k
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About Mapping Quality
... Hi all, I used TopHat to map RNA-Seq reads to genomes. In the output (.sam) file, the value of some mapping quality (the 5th column) is 255. What does it mean? And I found these reads which have mapping quality 255 mapped to unique place. Thanks! Victor ...
tophat rna-seq written 5.8 years ago by Li, Jilong (MU-Student)80 • updated 5.8 years ago by Kevin Silverstein20
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Cufflinks Fpkm
... Hi, I want to use cufflinks handle the results of Tophat. Cufflinks uses FPKM to normalize the expression data. I think FPKM is for pair-end reads. right? My reads are single-end. Is it right if I use FPKM? Thank you very much! Victor ...
cufflinks rna-seq written 6.1 years ago by Li, Jilong (MU-Student)80 • updated 5.9 years ago by Jennifer Hillman Jackson23k
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Comment: C: How To Transfer Gene Id Into Protein Id
... Hi, I have some refseq gene id, like NM_***** and NR_******. I know how to transfer NM_****** into protein ID NP_*****. But, how to transfer NR_***** into protein id, like NP_****? I do not know. Could you please tell me? Thank you very much! Victor ________________________________________ T ...
written 6.1 years ago by Li, Jilong (MU-Student)80
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How To Transfer Gene Id Into Protein Id
... Hi, I have some refseq gene id, like NM_*****. How can I transfer these gene id into protein id, like NP_****? Thank you very much! Victor ...
written 6.1 years ago by Li, Jilong (MU-Student)80 • updated 6.1 years ago by Jennifer Hillman Jackson23k
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Answer: A: One Error While Installing Galaxy
... Hi, When I installed galaxy, one error message appeared, which said that ImportError: No module named distutils.util Fetch failed. Could you tell me how to solve this problem? Thank you very much! ...
written 6.1 years ago by Li, Jilong (MU-Student)80
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One Error While Installing Galaxy
... Hi, When I installed galaxy, one error message appeared, which said that ImportError: No module named distutils.util Fetch failed. Could you tell me how to solve this problem? Thank you very much! ...
galaxy written 6.1 years ago by Li, Jilong (MU-Student)80

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