Bioinformatics Stack Exchange Community Digest

Greatest hits from previous weeks:

Changing the order of colors in pheatmap

I plotted a heatmapI want cancer to be red and healthy to be blue...

rheatmap

asked byZizogolu Score of 2 answered byBasti Score of 5

Where to access the WGCNA tutorial documents: Horvath lab site down

I am currently using the WGCNA package for some analysis and it seems the Horvath lab site is down. Does anyone know of anywhere else I can access the tutorial documents?

wgcna

asked byStephanie O'Donoghue Score of 6 answered byPeter Langfelder Score of 13

How to scale the size of heat map and row names font size?

I have an expression data matrix (120X15; 15 samples and 120 genes), my heatmap looks blurred and raw names (gene names) looks very small and can not read. How can I improve my scripts?Here is the ...

rrna-seqproteinsclustering

asked byKynda Score of 5 answered bysjcockell Score of 5

ERROR: (subscript) logical subscript too long

I am trying to remove a row of a dataframe in R however because the dataframe is so large when I use:rawCounts <- rawCounts[rawCounts != geneID, ]I get the ...

r

asked byJack Henry Score of 1 answered byJack Henry Score of 2

How to translate amino acid sequences to Nucleotide sequences

I want to convert a list of fasta ( protein sequences) in a .text file into corresponding nucleotide sequences. A Google search gives me result of DNA to protein conversion but not vice versa. Also, I ...

proteinspythonphylogeneticssequence

asked byuser3289492 Score of 5 answered byPedroSebe Score of 5

Why do NEBNext indexing primers have sequence between the p5 oligo and index?

In a previous post I asked Why do NEB adapters have non-complementary sequence?Since then, I realized that there is some other sequence in the p5 indexing primer, as well as in the p7 indexing ...

phylogeneticsilluminaadapterpcrlibrary

asked byconchoecia Score of 5 answered byBeth Nelson Score of 5

What is a read count?

A very basic question: What exactly is a read count in shotgun sequencing and how is it calculated? I'm particularly interested in understanding the definition of the read count in the context of ...

ngs

asked byuser3076813 Score of 3 answered byd_kennetz Score of 5