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written 20 months ago by
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News:
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21 months ago by
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23 months ago by
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Comment: Venter Genome Vcf
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Jeremy Leipzig
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there are some violations in this VCF:
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Answer: Cut&Run and heatmap
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Hi all,
I am new to cut&run or any peak-related analysis and appreciate any guidance on my issue here: I have analyzed peakcalling .txt …
Comment: Functional enrichment analysis for unique gene IDs
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Since the locus-tags are unclassified, I used the CDS instead of the locus-tags to retrive their ensembl IDs using ensembl bacteria website…
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Could you find a solution to your problem?
Comment: txt file to bigwig
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sogand
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Hi all,
I am new to these kind of analysis and appreciate any guidance on my issue here:
I have analyzed peakcalling .txt files that are r…
Answer: Help me with Heatmap
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Hello!
So, what is the correct design ?
You will have to ask yourself, what do you want to compare? WT vs mut? If so it will be strain. 2…
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1) you have to say what question you are actually asking. There are few different designs that would address different questions.
2) work…
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Ghada
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mmmm I am not sure. This is how I generate my consnsus sequence
# Get consensus fastq file
samtools mpileup -uf KT992094.1.fasta…
Comment: identify the coordinate for coding and non_coding region.
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Why do you have those N's at the beginning of the sequence? If the remainder of the sequence matches 100% then the initial N's may be wrong…
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It's nice that you've gone ahead and done some analysis of these results and their differences on your data yourself. These more general qu…
Comment: Python script to query GeneCards to get EntrezID, symbol from Ensembl geneID
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Mike Smith
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In this location there is an "entrez" file which maps ensembl IDs to Entrez. It's probably as definitive as you're going to find:
https://…
Comment: Python script to query GeneCards to get EntrezID, symbol from Ensembl geneID
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Anya
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Tried it just recently with almost the same results. 456 out of 496 IDs for protein-coding genes returned as "NA" even though I can see NCB…
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wget https://ftp.ncbi.nlm.nih.gov/genomes/refseq/bacteria/assembly_summary.txt
awk -F '\t' '{if($12=="Complete Genome" && $11=…
Answer: How do i calculate the mean of triplicates in a data.frame based on pattern?
by
dariober
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I'm a happy user of [data.table](https://rdatatable.gitlab.io/data.table/):
```
library(data.table)
dat <- structure(list(sgrna = c("Cont…
Comment: How do i calculate the mean of triplicates in a data.frame based on pattern?
by
Assa Yeroslaviz
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I know it can be done with something like that:
```
cbind(p767.AM = (rowMeans(p767[,2:4])),
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