All Questions
6 questions
2
votes
1
answer
301
views
Correlation heatmap of RNA-seq clusters all samples together leading to very low no. of DEGs
I am writing to you to take an input or may be you can provide a different perspective. I am at wits end :(
So I have nearly 200 samples. These are separated into two groups (group I treated with ...
- 237
2
votes
1
answer
66
views
Is it possible to do homology inference across species using different kinds of NGS data?
Background: I have a list of species that I want to put through homology inference. The goal of homology inference is to investigate the evolution of a trait on a species tree. I want to use the ...
- 217
2
votes
1
answer
84
views
How to make unrooted tree for Likelihood mapping result by using IQ2-tree?
I am a biologist, and I do not fully understand the tree topology of the experimental species.
I used four-taxon set (4 sequences) to identify the Four-cluster Likelihood-Mapping by using
...
- 21
4
votes
2
answers
1k
views
How can I classify the 3 clades(S, G, V) of the coronavirus without using protein data?
On GISAID they classified the coronavirus using 4 clades(S, G, V, Other).
I downloaded around 1,000 complete genomes of the coronavirus from GISAID and I would like to classify each one as belonging ...
- 141
1
vote
2
answers
54
views
Download sequences of isoforms
I want to collect all isoforms of all genes (Fasta/Fastq file of nucleotide and protein sequences) Arabidopsis Col-0. I am wondering if there is a straightforward way to download the file from any ...
- 11
3
votes
1
answer
206
views
Removing genes with less than a correlation cut-off between two matrices
I have two matrices like this:
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