User: Amit Indap

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Amit Indap10
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9 years, 7 months ago
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Posts by Amit Indap

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Comment: C: Understanding Contrasts when analyzing DESeq2 results
... Thanks for your reply, Michael. I forgot to check the FAQ. I read If I have multiple groups, should I run all together or split into pairs of groups?  Is it because the dispersion parameter is different, then?  ...
written 15 months ago by Amit Indap10
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Understanding Contrasts when analyzing DESeq2 results
... Dear Bioconductor/DESeq2 community, I am trying to analyze RNAseq data with DESseq2 and have a question about contrasts and interactions. I have RNAseq data on untreated and treated cells collected at 4 different time points. I have quantified my transcripts using salmon. Initially, I was performin ...
rnaseq deseq2 extracting contrasts interaction term written 15 months ago by Amit Indap10 • updated 15 months ago by swbarnes2330
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color key - heatmap.2
... Hi, I plotting a heat map using heatmap.2 command, where my rows are samples columns are sequence capture regions. The entry in the matrix is the average depth of coverage for that sample/target. heatmap.2 is doing what want, but the color key is showing a column z-score for mapping the colors. I ...
coverage written 9.6 years ago by Amit Indap10 • updated 9.6 years ago by Sean Davis21k

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Popular Question 9.6 years ago, created a question with more than 1,000 views. For color key - heatmap.2

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