I am an immunology student learning bioinformatics. I was searching to find the right answer for the problem I have but haven't found any concrete explanation.
I have an exome seq data file downloaded from a public database. The excel file contains details regarding ProbeID, gene name, gene id, chromosome, start, end, snptype for the cell line of my interest. I wanna perform variant calling on this data and obtain the mutated sequences. I would like to know how to start aligning or retrieving the sequence.