DNAnexus QA homework

DNA is a long molecule that lies inside the nucleus of a cell, and it can be thought of as a very long string consisting of characters in the alphabet {A, C, G, T}. DNA sequencing is the technology that enables reading from DNA molecules and converting them to strings on the output. This convertor works in the following way: the DNA molecules in the input are fragmented into pieces of equal length L; each piece is then sequenced by the technology, and its content is encoded in the output.

How to run

1. Install dependencies npm ci
2. Run convertor npm start <inputPath> <L> where inputs are:
   1. inputPath is the path to an encoded file with DNA molecules fragmented in pieces
   2. L length of a DNA fragment, a number greater than zero

Example with input file from the repo:

npm start ./dna_conversion_samples/input 100

How to test

Test are run automatically on commit

1. Install dependencies npm ci
2. Run convertor npm test

TODOs

• test data generation
• more test for the formatter
• redo parameter tests with mock-fs or just jest mock
• performance tests with larger data set