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Recent Replies
Comment: How to enable multiple cores/threads for Bowtie2 or BWA using Macbook M2 chip?
by
GenoMax
125k
`top` will show thread info but it will be aggregated in % (e.g. you will see 400% use for 4 cores). You could use `htop` to look at indivi…
Answer: How to compare different illumina indices with each other to see how similar or
by
GenoMax
125k
Using `bowtie` v.1.3.1
$ more inde
>1
ACAGTGAT
>2
ACTGATAG
>3
ACTTGAGA
>4
AGTCAATA
>5
AGTTCCGG…
Comment: How to enable multiple cores/threads for Bowtie2 or BWA using Macbook M2 chip?
by
weixiaokuan
▴
130
Thank you for your answer @GenoMax!
Is there a way to dynamically monitor threads usage for a specific command such as bowtie2? I previous…
Comment: Index with unmasked or masked in HISAT2
by
ibq.enriquepola
•
0
I have read that in masked genomes low complexity and repetitive regions of DNA are detected and replaced with 'N', do you suggest using un…
Comment: how to get an average ROC curve after 10-fold cross validation in r
by
GenoMax
125k
Please do not post follow up information as `answers`. Use `ADD REPLY` or `ADD COMMENT`.
Comment: geom_errorbar not dodging or producing horizontal line
by
FrankStarling
▴
20
ggplot(data2, aes(x=Cohort, y=Mean_R2, color = Trait)) +
geom_errorbar(aes(ymin=Mean_R2+SD, ymax=Mean_R2-SD), position="dodge")+
…
Comment: Clustering and dynamic tree cutting
by
harish
•
0
thank you for the effort, I did calculate the hr as you have shown.
hr <- hclust(as.dist(1-cor(t(scaledata), method="pearson")), method="c…
Comment: geom_errorbar not dodging or producing horizontal line
by
bsp017
▴
40
I get the following error:
ggplot(data2, aes(x=Cohort, y=Mean_R2, color = Trait)) +
+ geom_errorbar(aes(ymin=Mean_R2+SD, ymax=Me…
Comment: how to get an average ROC curve after 10-fold cross validation in r
by
Lisa
•
0
You are right the average numbers are not correct. 0.8831 for cutoff, 0.7726 for specificity and 0.7445 for sensitivity is correct.
what …
Comment: Size of two scRNA-Seq conditions
by
Chris
▴
60
I have QC stat with violin plots n_Feature_RNA, nCount_RNA and percent.mt, not exact numbers. Is that the info we need in this case?
Comment: How to compare different illumina indices with each other to see how similar or
by
jv
▴
790
Are you trying to demultiplex a fastqc file? If so, there are tools for that. Else, what do you mean by 'indices'?
Comment: Mapping with bbmap.sh
by
GenoMax
125k
Those `Notes` are simply indicating that the BBMap index has been pre-created separately and will be used as is.
Comment: Size of two scRNA-Seq conditions
by
Chris
▴
60
Dataset 1 has 19760 cells and dataset 2 has 6705 cells. I am trying to get the code to get the info you want. I am still trying to learn 😅.
Comment: MetaboAnalyst: Interpreting Enrichment Analysis Results
by
eva_u
▴
10
Note: it seems I have confused Q statistic with the Q- value; please disregard the 1st part of the question
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