User: dsp

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dsp60
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Posts by dsp

<prev • 53 results • page 1 of 6 • next >
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Comment: C: How to perform Fisher's exact test between two gene lists for a particular gene
... For eg: I want see for MAP3K1. Could you please tell how to see it is wildtype or mutant? And then after that I want to perform fisher.test function. MAP3K1 wt mutant Genelist1 x x Genelist2 x x ...
written 4 weeks ago by dsp60
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How to perform Fisher's exact test between two gene lists for a particular gene in R?
... Hello Everyone, I have two gene lists with sample, gene, chromosome, mutation_type, start, end, codon columns. Want to perform Fishers test between two gene lists for a particular gene eg: MAP3K1. Can anyone tell me how can I perform this in R? Thank you ...
R test fishers significance statistics written 4 weeks ago by dsp60 • updated 4 weeks ago by sysbiocoder150
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Comment: C: How to create a mutation landscape (waterfall) plot with GenVisR
... Hi Rahel, The link which you posted is not working. If you want to give an image Go to (https://imgsafe.org/) and browse the image u need, copy the link. Above the comment box, click the image and Paste the link you copied before. Better create a new question. Thank you ...
written 5 weeks ago by dsp60
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Comment: C: How to create a mutation landscape (waterfall) plot with GenVisR
... Thanks for the reply. It worked. ...
written 6 weeks ago by dsp60
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Comment: C: How to create a mutation landscape (waterfall) plot with GenVisR
... Hi Griffith, The mutation data which I'm using has table(SMutations$variant_class) frameshift indel inframe indel missense SNV nonsense SNV stoploss 1352 354 10206 808 5 synonymous SNV ...
written 6 weeks ago by dsp60
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Comment: C: How To Plot Clustered Mutation Profiles Using Tcga Mutation Data
... Hi Zachary, Could you please check this error. https://www.biostars.org/p/181159/#230285 Thank you ...
written 6 weeks ago by dsp60
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Comment: C: illumina gene expression
... Hi Kritika, Same like yours I need to do gene expression analysis with IDAT files. Could you please tell me how did you do your analysis? Workflow and packages. Thank you ...
written 6 months ago by dsp60
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Comment: C: Data integration between gene expression - RNAseq and DNA methylation - Illumina
... Hi, Could you please reply to my comment. Thank you. ...
written 7 months ago by dsp60
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Comment: C: What is a typical workflow to correlate methylation and expression data?
... linear mixed model ? ...
written 7 months ago by dsp60
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Comment: C: What is a typical workflow to correlate methylation and expression data?
... Hi Charles, I have differentially expressed genes from Transcriptome analysis. And right now I'm working on Illumina methylation Data using EPIC (850k) data (Microarray analysis). I have the beta values. So, now based on cutoff (beta value 0.2) I have some probes like cg18478105, cg09835024 etc... ...
written 7 months ago by dsp60

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