Day 2 Afternoon Exercise

schidambaran commented 2 months ago

Exercise	Description	Completion
Q1	`grep.py` completed	Yes
	`sys.argv` indexed	Yes
	Text file processed	Yes
	Newline characters removed	Yes
Q2	`gtf2bed.py` completed	Yes
	Chromosome, start coordinate, stop coordinate printed	Yes
	`gene_name` cleaned up and printed	Yes
Q3	`tally-fixed.py` completed	Yes
	Bug 1 fixed	Yes
	Bug 2 fixed	Yes
	Bug 3 fixed	Yes

Great work!

~~Comments:~~ - In grep.py, it doesn't seem like you're checking if a particular value is in each line of the file. Consider adding another command line argument for the value of interest, and using in to see if it's in each line. ~~- In gtf2bed.py, the "gene_name" text is not being removed.~~

fijareplous commented 2 months ago

When I run gtf2bed.py on the genes.gtf file we made during class, the "gene_name" string is not printed out, e.g.:

chrM    10760   12137   MT-ND4
chrM    12138   12206   MT-TH
chrM    12207   12265   MT-TS2
chrM    12266   12336   MT-TL2
chrM    12337   14148   MT-ND5
chrM    14149   14673   MT-ND6
chrM    14674   14742   MT-TE
chrM    14747   15887   MT-CYB
chrM    15888   15953   MT-TT
chrM    15956   16023   MT-TP

Please let me know if there's anything I need to change!

schidambaran commented 2 months ago

Thank you! Updated the rubric, you are at 100% completion now!

fijareplous / qbb2024-answers

Day 2 Afternoon Exercise #4