User: roy.granit

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roy.granit830
Reputation:
830
Status:
Trusted
Location:
Israel/LabWorm
Website:
http://roygranit.me/
Twitter:
rgranit
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Google Scholar Page
Last seen:
1 month ago
Joined:
6 years, 1 month ago
Email:
r*********@gmail.com

I'm a co-founder & CTO at LabWorm a crowd voting platform that enables scientists to discover the best & newest online research tools. Previously I explored pathways that determine intratumoral heterogeneity using high-throughput molecular biology & bioinformatics. My personal website.

Posts by roy.granit

<prev • 145 results • page 1 of 15 • next >
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Comment: C: Interpreting DEseq2 output
... Thanks, using `counts(dds, normalized=TRUE)` I was indeed able to obtain the normalized counts and obtain a better understanding of the data.. ...
written 9 weeks ago by roy.granit830
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Comment: C: Interpreting DEseq2 output
... The lib is 3' based, so I believe that the transcript length is not relevant in this case ...
written 9 weeks ago by roy.granit830
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Interpreting DEseq2 output
... I have been using DEseq2 for quite a while, but today I was looking a certain transcript and compared that to the raw counts, and found little login in the results. These are the output values: log2FoldChange: 0.3434941483 pvalue: 2.16740140052804e-06 padj: 5.65192536063831e-06 ...
deseq2 written 9 weeks ago by roy.granit830 • updated 9 weeks ago by rpolicastro2.1k
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Comment: C: Align to custom sequences using STAR aligner
... Thanks, how reliable is bbmap? never heard of it.. ...
written 4 months ago by roy.granit830
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Comment: C: Align to custom sequences using STAR aligner
... I did not mention that some of these genes do not exist in the genome.. ...
written 4 months ago by roy.granit830
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Align to custom sequences using STAR aligner
... I have 3 amplicons that I have sequenced and now I wish to align them to the sequences of these three genes so I can quantify how many reads mapped to each gene. In order to use STAR must I go through the steps of genome indexing or is there a way to align stright with the fasta file containing the ...
star rna-seq written 4 months ago by roy.granit830
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How to check how variable a given DNA sequence is?
... I have a human DNA sequence and I wish to check how variable this sequence is.. is there a way to check how many SNPs are found at the given location? Thanks! ...
snp dna written 5 months ago by roy.granit830 • updated 5 months ago by Pierre Lindenbaum131k
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Comment: C: Statistical significance of the intersection of three gene lists
... I wish to know if the overlap of ALL three lists together is significant, so I don't believe that contingency table would fit this use case. ...
written 6 months ago by roy.granit830
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Statistical significance of the intersection of three gene lists
... Hi All, I have 3 independent lists of genes, and I would like to assess the statistical significance of the intersection of the lists. For two groups I have used hypergeometric test, but I'm uncertain what should be done here. Any ideas? Thanks! ...
hypergeometric statistics written 6 months ago by roy.granit830
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Comment: C: ChIP to genes
... I found these tools: http://bioconductor.org/packages/devel/bioc/vignettes/ChIPseeker/inst/doc/ChIPseeker.html and http://great.stanford.edu/public/html/ ...
written 6 months ago by roy.granit830

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