User: bxia

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bxia100
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1 year, 4 months ago
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Posts by bxia

<prev • 91 results • page 1 of 10 • next >
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Could I map strand specific RNA-seq with non-strand specific?
... I have some RNA-seq samples, some are strand specific, some are not. Cuffdiff only can use either strand specific or non-strand specific, if I want to run all these samples together, could I just use the non-strand specific for cuffdiff? Except for the antisense RNA, is there a huge problem of do ...
rna-seq written 27 days ago by bxia100 • updated 27 days ago by Renesh1.1k
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What is the difference between hg19 v9 vs hg19
... I saw some encode data has processed file with hg19 v9 and hg19. What is the difference? ...
rna-seq written 5 weeks ago by bxia100 • updated 5 weeks ago by Denise - Open Targets4.0k
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how do I know there is alternative transcript switch in RNA-seq
... I know cuffdiff2 could detect transcripts expression level. But what is the criteria that I could say that there is transcript switch? Let's say two transcript, A, B, and two conditions. What is the best way to conclude there is a switch, is there a gold standard? Thanks, ...
rna-seq written 3 months ago by bxia100 • updated 10 weeks ago by Biostar ♦♦ 20
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Comment: C: How to know a RNA-seq is polyA or total-RNA-seq in GEO?
... So there is no way to figure them out without mapping result, right? ...
written 4 months ago by bxia100
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How to know a RNA-seq is polyA or total-RNA-seq in GEO?
... How to know a RNA-seq is polyA or total-RNA-seq in GEO? Does GEO require that kind of meta data during submission? Thanks, ...
geo rna-seq written 4 months ago by bxia100 • updated 4 months ago by Devon Ryan71k
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Comment: C: bed format, START always bigger than END, no matter which strand?
... That is a good idea. Thanks ...
written 4 months ago by bxia100
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Comment: C: bed format, START always bigger than END, no matter which strand?
... I am trying to convert .bowtie file generated by bowtie to BED ...
written 4 months ago by bxia100
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bed format, START always bigger than END, no matter which strand?
... I am trying to convert bowtie to bed format. in bowtie, it only provide start position, if the strand is '-', is that the START in bowtie is actually the left of the reads, no matter which strand? And in bed format, START always bigger than END, no matter which strand? For example, in bowtie I ...
bed bowtie written 4 months ago by bxia100 • updated 4 months ago by Alex Reynolds21k
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Comment: C: Encode http 403 error, I am being blocked?
... yeah...it is working for me too...maybe the block is temporarily? ...
written 5 months ago by bxia100
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Encode http 403 error, I am being blocked?
... I am receiving 403 error when I tried to download fastq from Encode. Does that mean I am being blocked? Is there anyone could download the data from encode right now? Thanks, ...
rna-seq written 5 months ago by bxia100

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Popular Question 3 months ago, created a question with more than 1,000 views. For how do I know the breast cancer subtype based on TCGA clinical data
Popular Question 6 months ago, created a question with more than 1,000 views. For how do I know the breast cancer subtype based on TCGA clinical data
Student 10 months ago, asked a question with at least 3 up-votes. For HTSEQ count is the raw count, not RPKM or FPKM, right?
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