User: SpacemanSpiffo

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Posts by SpacemanSpiffo

<prev • 13 results • page 1 of 2 • next >
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Comment: C: What hypothesis test does R use by default for Pearson's correlation coefficient
... Thank you. Based on this, is it correct to say that a Student's t-test is being peformed? ...
written 5 weeks ago by SpacemanSpiffo30
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What hypothesis test does R use by default for Pearson's correlation coefficient when using cor.test()?
... I have two vectors, X and Y I perform a correlation test using them > cor.test(x, y) From this, I get a p value and a correlation value, among other things. In a manuscript, I report my results like so: > Pearson’s r(283) = 0.943, p < 2.2e-16 I have been asked to define which statisti ...
R statistics written 5 weeks ago by SpacemanSpiffo30 • updated 5 weeks ago by i.sudbery11k
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Answer: A: PLINK export plugin GenomeStudio
... I'm 3 and a half years late to this but for anyone else who stumbles upon this page - this is almost certainly due to the really confusing naming system in Illumina's GenomeStudio - the "forward allele" column in the software doesn't mean what it normally means. To get the column normally thought of ...
written 23 months ago by SpacemanSpiffo30
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Comment: C: Is there a GRCh37 equivalent of EnsDb.Hsapiens.v86 or some other method for gett
... Why thank you, sir!! ...
written 2.3 years ago by SpacemanSpiffo30
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Is there a GRCh37 equivalent of EnsDb.Hsapiens.v86 or some other method for getting a complete list of genes and their coordinates from GRCh37?
... I'm looking to work out if any of a large list of SNPs occur within the genomic range of any gene. The coordinates I have for the SNPs, however, are in GRCh37. I have the EnsDb.Hsapiens.v86 object in R, which provides a full list of genes and their genomic ranges, which is exactly what I need, howev ...
assembly bioconductor genomics R written 2.3 years ago by SpacemanSpiffo30 • updated 2.3 years ago by toralmanvar910
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Where can I download full transcriptome profiles for specific regions in the human brain?
... I am attempting to make comparisons between the transcriptome of an IPS-derived neural stem cell and that of region-specific samples from external sources. So far I haven't been able to find any such data set available for download. Would anyone have a source to recommend? TPM format would be pref ...
rna-seq brain written 2.4 years ago by SpacemanSpiffo30 • updated 2.4 years ago by Kevin Blighe71k
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Comment: C: R read.table() saying line does not have correct number of elements - when I che
... Wow, that worked perfectly first try, thanks very much. Any idea why `read.table()` wasn't working? Normally specifying `sep = ","` works fine ...
written 2.4 years ago by SpacemanSpiffo30
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Comment: C: R read.table() saying line does not have correct number of elements - when I che
... It should have 31 I believe - just double checked and in my Excel, 31 columns are displayed when I open "first200.csv" ...
written 2.4 years ago by SpacemanSpiffo30
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Comment: C: R read.table() saying line does not have correct number of elements - when I che
... Yes, thanks for replying. I've amended my original post with a link to the download for the first 200 lines. ...
written 2.4 years ago by SpacemanSpiffo30
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R read.table() saying line does not have correct number of elements - when I check, it definitely does
... I'm trying to read a csv table into R, but I get the following error "line 195 did not have 31 elements" however, when I check , both in Python and through copying the line into R as a string, the line (and the surrounding lines) definitely all have 31 elements. Is anyone able to hazard a guess as ...
software error R written 2.4 years ago by SpacemanSpiffo30 • updated 2.4 years ago by ATpoint46k

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