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How to access the ACLAME server?

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Comment: Automatic rename of filenames with bash script

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Popular Question to mrashad ▴ 60

Recent Replies

Comment: How to regress out age and sex using limma removeBatchEffect by aropri ▴ 80

so would first batch be batch = nph_csf_metadata$age, and second batch2 = nph_csf_metadata$sex?

Comment: How to access the ACLAME server? by GenoMax 115k

This appears to be a 10+ year old paper and as with many of these services it may be dead. Are you certain it was available recently?

Answer: How can I find a DNA sequence that codes for a protein from a large FASTQ file? by GenoMax 115k

I will add one more idea. Once you get the DNA sequence of the protein you are looking for you can align (using a NGS data aligner) the rea…

Answer: How to regress out age and sex using limma removeBatchEffect by linnaeusbundalian • 0

afaik, limma::removeBatchEffect can accept two batches i.e specifying batch = (first batch) and batch2 = (second batch)

Answer: How can I find a DNA sequence that codes for a protein from a large FASTQ file? by Mensur Dlakic ★ 18k

I think most people on this forum will tell you that you should solve your homeworks independently. That is the whole point of learning, an…

Comment: How to add the ancestral allele (AA) information in a vcf file? by Pierre Lindenbaum 145k

no, unless you have file similar to http://ftp.1000genomes.ebi.ac.uk/vol1/ftp/phase1/analysis_results/supporting/ancestral_alignments/

Comment: How to add the ancestral allele (AA) information in a vcf file? by taniamahmood38 ▴ 20

Thanks for the help. But please kindly clarify that if the vcfancestralallele command will work on any specie vcf file other than human? …

Comment: Lasso regression and cross-validation on RNA seq dataset by Mensur Dlakic ★ 18k

Yes, the idea is to perform CV on a train dataset and evaluate on test. For this to be reliable, some kind of a stratified split is needed …

Comment: Automatic rename of filenames with bash script by cpad0112 20k

How I do it if i want modifiy all files in a folder? A . instead of .txt or a simple ``? instead of `for filename in *.fasta`, you can…

Comment: Automatic rename of filenames with bash script by Morta • 0

Ok. Thanks is now working with txt files with the word *.txt instead of *.fasta!

Answer: Automatic rename of filenames with bash script by Pierre Lindenbaum 145k

ah yes sorry, that was the output , not my script. OK the message in german is clear. There is no file with the suffix *.fasta in the direc…

Comment: Automatic rename of filenames with bash script by Morta • 0

I posted only the output of the script. I copied one to one your new script.

Comment: Automatic rename of filenames with bash script by Pierre Lindenbaum 145k

I wrote ls -lah "${filename}" not ls -lah '${filename}'

Comment: Automatic rename of filenames with bash script by Morta • 0

I did with rename but I was curious about how I do with this bashscript. I try to understand the error of the script for what I want to do.

Comment: Automatic rename of filenames with bash script by cpad0112 20k

what are you trying to do? You do not need a loop here. Use rename.

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