User: kamal.fartiyal84

Reputation:
10
Status:
New User
Location:
Cancer Research UK Cambridge Institute
Last seen:
10 months ago
Joined:
4 years, 5 months ago
Email:
k***************@gmail.com

Posts by kamal.fartiyal84

<prev • 26 results • page 1 of 3 • next >
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Comment: C: MSnset combine error message
... Actually you are right, upon checking one of the column name is same across two objects. I think this generated the error. Thanks. ...
written 10 months ago by kamal.fartiyal8410
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Answer: A: MSnset combine error message
... The column names are not identical. I am combining about 40 different samples based on the common peptides shared among them. Features (rows) represents peptides. ...
written 10 months ago by kamal.fartiyal8410
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MSnset combine error message
... Hi, I get the following error message on combining this dataset I have using the following command: MSnset_comb_norr <- MSnbase::combine(MSnset_Set1,MSnset_Set2,MSnset_Set3,MSnset_Set4) Error in combine(x[[nm]], y[[nm]]) : matrix shared row and column elements differ: Mean r ...
msnbase written 10 months ago by kamal.fartiyal8410
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Answer: A: How to manipulate assayData in MSnSetList
... Thanks Laurent. It works. ...
written 19 months ago by kamal.fartiyal8410
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How to manipulate assayData in MSnSetList
... I want to perform some operation to the assay data of MSnSet within a MSnSetList but I think its now allowed. Could you please let me know how to do such a thing? A simple example is shown below. library(MSnbase) library(pRolocdata) data(dunkley2006) dun <- split(dunkley2006, "replicate") exprs ...
msnbase written 19 months ago by kamal.fartiyal8410
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Answer: A: Combining two MSnSet
... Hi, One small confusing thing is the following message in the processing information where it should mention the dimensions of the combined MSnSets. Have a look into the text marked in bold.  > exp12 <- MSnbase::combine(MSnset_P1, MSnset_P2) > exp12 MSnSet (storageMode: lockedEnvironmen ...
written 21 months ago by kamal.fartiyal8410
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Answer: A: Combining two MSnSet
... Hi Laurent, I got it now. When combining different samples featureNames has to defined as protein accession (or the combining variable). In my dataset it had no featureNames but just numbers so thats why it was giving wrong results. It does not give any error message but just wrong results. Thanks ...
written 21 months ago by kamal.fartiyal8410
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Answer: A: Combining two MSnSet
... Hi, The combine function for combining two different MSnSets with completely different sample names is producing erroneous results. So instead of returning as mentioned in the vignette unique (n1)+unique (n2)+ shared (n1,n2) rows, it is returning an MSnSet with nrow of max(n1,n2). I tried various ...
written 21 months ago by kamal.fartiyal8410
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Answer: A: error displaying bam files
... Hello Matrin, Thanks for your reply. Yes, it works now.         ...
written 23 months ago by kamal.fartiyal8410
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error displaying bam files
... Getting following error on displaying the content of bam file.  > aln <- readGAlignments("sample.bam") > aln GAlignments object with 32984922 alignments and 0 metadata columns: Error in (function (classes, fdef, mtable)  :   unable to find an inherited method for function ‘rglist’ for ...
genomicalignments written 24 months ago by kamal.fartiyal8410

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