The Pediatric Soft Tissue Sarcoma Paper, a COVID lock-down side quest and what is a genomic variant

Our paper Germline variants in patients diagnosed with pediatric soft tissue sarcoma. was published during the summer. This paper began with the story of a young male with a sarcoma in the prostate. This is a very rare condition. The treating physician wanted to find better treatment options and in an attempt to get some clues to what, our lab did 360 gene panel DNA sequencing to see if there was any targetable mutations that could direct the treatment of this young man.

How to make R and Python scripts, and make them executable

While practicing my R and Python skills, I have written a script in both R and Python that will perform the same task. Namely take a DNA sequence from a fasta file, count it’s length, and the number of G’s, C’s and N’s while taking upper and lowercase format into account. Then it prints a message with the calculation results. I also included a step that will count how many seconds it takes to do the the calculations, so we can compare which script runs fastest.