I have a csv file with a column which contains the gapped sequences then a column with the reference sequence and a column with the mutations (it makes appear that the mutatins between the gapped sequence and the reference sequence: thus when there is match it is a - that there is and when there is mutation there is the amino-acid of the mutated sequence) thus I would like to align these two sequences: between the gapped sequence and the sequence mutations. In order to get a column (for example: "L 123>M") with the original value ("L"), the value of the mutation (for example "M") then the position of the mutation ("123"). I don't know which module in python I could use to do this. Do you have any solutions please?
1 answer
I think you want to add a column using pandas (see link below).
Add Column to Pandas Dataframe
It might help if you could provide some sample data.
Log in to answer this question.
-
To find amino acid substitution from fasta alignment
written by shwetamgr1 •
-
how to convert a protein sequence into a list of characters
written by Debut •
-
How to Detect Frameshifts in a Protein Alignment
written by nickeener •
-
aligning protein with another using MUSCLE.
written by sea.quit90 •
-
What does Entrez_Gene_Id 0 mean?
written by haiying.kong
-
AA position to genomic location
written by xcalle91 •
-
Protein database for TCGA MAF files
written by Alejandro Jimenez Sanchez
-
How to get the mutated protein sequence from the DNA mutation information like the VCF or MAF file?
written by bioinflix •
-
ClinVar Mutation representations and Descriptions
written by vigprasud
-
Vcf File --> Gene/Protein Mutation Information
written by newDNASeqer
