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Answer: Query regarding fread package in R

How to become a moderator and other ways of contributing to Biostars

Comment: cuffmerge error

Demultiplex fastq files

Answer: How to make Y-Axis Bigger on Enhanced Volcano Plot

Comment: Tools to plot gene arrow diagram

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Comment: Loading Traitdata file for WGCNA analysis by Basti ▴ 910

Please provide an example of `datTraits`, it is likely impossible to help without seeing data `head(datTraits)`

Answer: Error with scanpy package on Jupyter notebook by massa.kassa.sc3na ▴ 520

Hi, It appears that the `scanpy` is is missing `skmisc` module. Probably it is dependency needed only in some cases as there is an error h…

Comment: cuffmerge error by iraun ★ 4.7k

Go to the folder where cufflinks is installed, and edit [cuffmerge][1] python script with the changes suggested in the previous link. […

Comment: Pathway Score measurement in R by Marco Pannone ▴ 490

Maybe look at ES and NES values in [GSEA](https://www.gsea-msigdb.org/gsea/index.jsp).

Comment: Pathway Score measurement in R by xingyu • 0

is there a ansewer for pathway activity score?

Comment: cuffmerge error by Iqbal • 0

I just look at it but I'm not sure how should I fix it. I'm not very used to CLI

Comment: cuffmerge error by iraun ★ 4.7k

Hello! Have you seen the workaround suggested [here][1]? [1]: https://github.com/cole-trapnell-lab/cufflinks/issues/130

Answer: Compare pathway activation across microarray datasets? by xingyu • 0

I want to ask a question about your propose. do you want to compare the differential pathways in the identical sample?

Answer: align kmers to reference genome by liorglic ▴ 950

Not sure if that's the best/fastest way, but I use BWA like this: ``` # map bwa aln <genome.fasta> <kmers.fasta> > <result.sai> bwa…

Comment: Query regarding fread package in R by abhisek061 ▴ 30

It's worked. Thanks.

Comment: How to convert Jaspar motif to input into homer? by 2050814297 • 0

Hi, did you finally solve this problem? I met this too.

Comment: How to read the AUGUSTUS results by Shin Taguchi ▴ 10

@ialbert Thank you for your comment! I will try to visualize the results using IGV.

Comment: How to make Y-Axis Bigger on Enhanced Volcano Plot by Irvin • 0

Oh wow can't believe it was that easy... THANK YOU SO MUCH!

Comment: Tool to detect small inversion in plastome by wes ▴ 90

thanks for the suggestion. Will give it a try

Answer: How to make Y-Axis Bigger on Enhanced Volcano Plot by rpolicastro 9.9k

If this is an rmarkdown document you can set the image height in the block header. ```{r fig.height=10} ***code*** ```

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