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a.zielezinski
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francois
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Recent Replies
Answer: What is the command to download GTF from NCBI
by
jared.andrews07
★
13k
From the command line on your linux machine:
```
curl -o datasets 'https://ftp.ncbi.nlm.nih.gov/pub/datasets/command-line/LATEST/linux-…
Comment: What is the command to download GTF from NCBI
by
Ram
36k
Your link doesn't have any files in it.
Comment: Splitting VCF into 10mb window subfiles for a given chromosome
by
ThunderPhoenix
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0
Thank you!
Comment: Command to move Desktop folder to File in Linux
by
Ram
36k
How does this answer OP's question? It moves nothing and addresses no requirement from the top level post. I've moved your post to a commen…
Comment: Command to move Desktop folder to File in Linux
by
Ram
36k
> a gtf folder I downloaded from NCBI
You downloaded a folder? How'd you do that?
> on my desktop into linux
Are they the same machine? …
Comment: Command to move Desktop folder to File in Linux
by
Jeremy
▴
340
You can use the Terminal in Linux, then the following command:
cd Desktop
Answer: How to do differential expressions in R from scRNAseq count files after scaling
by
jared.andrews07
★
13k
Read Seurat's `DoHeatmap` documentation. Or dittoSeq's `dittoHeatmap` documentation, either will work for whatever genes you want to plot a…
Comment: Select a list of genes of interest to visualise in heatmap of DESeq object
by
rpolicastro
8.8k
`assay` gets the count matrix from `SummarizedExperiment` or related objects like the DESeq2 object.
Comment: Only getting 25 results from UniProt REST ID Mapping
by
a.zielezinski
10k
UniProt is now undergoing major changes. In the meantime you can use job_`results = requests.get(f'{URL}/results/{job_id}/?size=500')`. Unf…
Comment: How many nr database subdirectories are there?
by
a.zielezinski
10k
There are 59 files for download in total :) If your query sequence set is small, you can run blast without downloading the nr database: `bl…
Answer: How many nr database subdirectories are there?
by
GenoMax
117k
There are 59 (+1 `nr.pal`) files for `nr` database (not sub-directories) as of today. This set of database files are already formatted. All…
Comment: Command to move Desktop folder to File in Linux
by
Pierre Lindenbaum
146k
> not helpful
of course it's not.
Comment: RNAseq Processing abnormal results
by
GenoMax
117k
I assume you used `Download Assembly` button and then got the sequence and GTF files? You could create a simple annotation format (SAF) fil…
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