User: vivekananthrp

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Posts by vivekananthrp

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Answer: A: Useful Bash Commands To Handle Fasta Files
... Linearizing the complete fasta file can be done using, while read line;do if [ "${line:0:1}" == ">" ]; then echo -e "\n"$line; else echo $line | tr -d '\n' ; fi; done < input.fasta > output.fasta Once linearized, say you want pick the sequence for the id `Q15049` you can use gre ...
written 2.1 years ago by vivekananthrp10 • updated 4 months ago by RamRS20k
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Internal stop codons in protein sequences
... Hi, there are protein sequences with internal stop codons ( '*' inbetween). For example, http://www.candidagenome.org/cgi-bin/protein/proteinPage.pl?dbid=CAL0000175821&seq_source=C.%20albicans%20SC5314%20Assembly%2022 What does these many internal stop codon means? While running bioinformatic ...
fasta bioinformatics stop codon sequence written 2.1 years ago by vivekananthrp10 • updated 2.1 years ago by harold.smith.tarheel4.2k
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cuffdiff "value_1" & "value_2", are they mean FPKM values from replicates for each condition?
... Hi, I have run cuffdiff for finding differentially expressed genes in two conditions. Each condition has 3 biological replicates, which were processed using cufflink. The "value_1" and "value_2" columns in gene_exp.diff file don't reflect the FPKM values from cufflinks. The FPKM values from 3 replic ...
fpkm cuffdiff rna-seq written 2.3 years ago by vivekananthrp10 • updated 2.3 years ago by Devon Ryan87k

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Popular Question 2.1 years ago, created a question with more than 1,000 views. For Internal stop codons in protein sequences

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