User: manjumoorthy95

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Posts by manjumoorthy95

<prev • 41 results • page 1 of 5 • next >
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Comment: C: Color key in heatmap.2 function in R
... Even in ComplexHeatmap package, when I use the colorRamp2(c(-3,3,9,15), c(“red”,”yellow”,”green”,”blue”)) The color range is still getting divided in the heatmap automatically to `15,10,5,0,-5`. I basically want to see only the values `(-3,3,9,15)` in the color range bar. ...
written 7 months ago by manjumoorthy9520 • updated 7 months ago by _r_am32k
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Color key in heatmap.2 function in R
... The below image shows the type of the heatmap i want. As you can see the color key range in the heatmap is -3,3,9,15. How to achieve the same? I have tried the `break` argument in the heatmap.2() function. But the color range keeps changing from what ever break i provide. I need the exact numbers i ...
R written 7 months ago by manjumoorthy9520 • updated 9 days ago by Biostar ♦♦ 20
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paired end data with varying read length
... I have a paired end data with forward read length of 28bp and reverse read of 120bp. Is this some sequencing error? Will this cause error while mapping the paired data to a reference Genome using tools like bwa or bowtie2? ...
illumina insert size rna-seq written 16 months ago by manjumoorthy9520 • updated 16 months ago by Biostar ♦♦ 20
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dispersionPlot in cummeRbund package
... In the cummeRbund Package for analysis of CuffDiff data, the `dispersionPlot()` function allows us to know whether over-dispersion has happened with our sample. In the X-axis of the plot is the mean of the count from each samples and on Y-axis the dispersion is shown. Can anyone help me to know whic ...
dispersionplot cummerbund dispersion rna-seq written 16 months ago by manjumoorthy9520
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Comment: C: Phylogenomic tree construction
... ok I will try that way ...
written 20 months ago by manjumoorthy9520
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Comment: C: Phylogenomic tree construction
... each strain has around 4.9 mb as the genome size. ...
written 20 months ago by manjumoorthy9520
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Comment: C: Phylogenomic tree construction
... But i wanted to use the entire genome of 15 strains of bacteria. ...
written 20 months ago by manjumoorthy9520
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Phylogenomic tree construction
... I wanted to construct phylogenomic tree using the whole genome of certain bacterial strains. can anybody help me with suggestions of softwares or webservers to use? ...
phylogenomics written 20 months ago by manjumoorthy9520 • updated 20 months ago by piet1.8k
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Fishers test for cog analysis
... Can anybody explain to me why do we perform fishers test on results of COG annotation. I have performed the functional annotation of proteins for a bacteria, by using Eggnog (COG Analysis). Is it mandatory to perform p test or fishers test on the results for cog analysis? ...
fishers test p value cog written 20 months ago by manjumoorthy9520
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Comment: C: heterozygous genotype in bacterial snp calling
... Ok thank you. Let me try out that way ...
written 21 months ago by manjumoorthy9520

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Popular Question 16 months ago, created a question with more than 1,000 views. For How to give merged reads as input in spades
Popular Question 16 months ago, created a question with more than 1,000 views. For Heatmap.2 dendrogram generation

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