43 add art - #47

Merged

mariaelf97 merged 20 commits into

mainfrom

Aug 28, 2026

Commits on Aug 27, 2026

add mason as a simulator option
mariaelf97
committed
f087d58
make insert size and insert size sd and read length universal for all simulators. add art sequencing technology
mariaelf97
committed
5816212
adjusting all other relavant functions with the new arguments
mariaelf97
committed
b8d7545
updating the tests accordingly
mariaelf97
committed
1f7ab73
reference file is optional
mariaelf97
committed
de97422
lint
mariaelf97
committed
36ab87d
update install requirements
mariaelf97
committed
c8217eb
change .fq to .fastq
mariaelf97
committed
f7f95d0
adding test function for art with metagenomics
mariaelf97
committed
05cfa3d

Commits on Aug 28, 2026

change default insert size
mariaelf97
committed
f38850c
breakdown to multiple lines
mariaelf97
committed
dbe57ff
use the variable name instead
mariaelf97
committed
d41f094
handle renaming of the reads when art is used
mariaelf97
committed
c86ee08
do not output alignment
mariaelf97
committed
4bf76c9
changing read length and insert size values in the test to avoid failing
mariaelf97
committed
2d7372e
updating the test command with the new naming ensuring the read length is not too long
mariaelf97
committed
b783910
change default insert size for mason
mariaelf97
committed
eaebb3a
no longer needed
mariaelf97
committed
b6856a7
update readme
mariaelf97
committed
5dcab01
bump version
mariaelf97
committed
edbcdab