IN NCBI and COGE- Released- PacBio CLR data
Jamaican Lion Female (mother) Assembly
https://mega.nz/#!1BYRyKDK!zOlM1xdGMAAoqk9z0vLmrTKFdf3UlhLjPUr9-Kp-kgA
Jamaican Lion Male (father) Assembly
https://mega.nz/#!AZJDQQ4K!3EVfai2DSa22cOeBvmG4f5Ph729xE66pNMXavK0SXVs
Jamaican Lion F1 (daughter) Assembly
https://mega.nz/#!ZcRlhAZJ!u2RQwYdS_Kx3qMLdzsim_kA_iWoY3rCv7P2Dpr6ru3I
Jamaican Lion Mother + Y Assembly
Mother Annotation
https://mega.nz/#!1cJ1QYBD!-Y33wOcJVJ8ZvM_XSxA7qxy15i7PurvNQRZu0ygEDjw
Father Annotation
https://mega.nz/#!pBYBjIbI!ph_afATKUVkmJCdNqKJgpTJ3dTj7CxdGwexoenmdKuA
Excel sheet describing THCAS, CBDAS, CBCAS
https://mega.nz/#!NNI1VKSa!BxUNtyke7eB4esMy9sy1JYbE_Qon0RhoZWQPpjggQbw
Sequence and annotation of 42 cannabis genomes reveals extensive copy number variation in cannabinoid synthesis and pathogen resistance genes
PAG 2020 presentations on this topic and Future Directions.
What constitutes a good reference?
Jamaican Lion HIFI CannAssemblethon
(Warning… These are draft assemblies)
20kb HiFi Library was sequenced on Sequel II.


Peregrine Assembly (Jason Chin)
Completed in 7 hours on an 64Gb MacOS with 1Tb of flash storage.
Alt Haplotigs https://mega.nz/#!5JIQlIoS!Urfqrc3WcIZor8XZkC4aCjHpamkXILQdBIGApb5YnEU
Primary Assembly
https://mega.nz/#!VYQCSAib!eOKs27Yg1ab-2on92ZeaADfcWM7jhstTIARIpB0l0OE


HiCanu Assembly (Sergey Koren)
Primary Assembly
https://mega.nz/#!8IITTCpY!MSfL9h5icwjhTb0Y4FIKv0f2n648uQ4R2_xChoAZmAs
Alternative Assembly
https://mega.nz/#!1YQVwQbB!BEzwP07yvz8FzHUtI_2_LO4f1lDVMYUS4_aNvci-ZD4
Merged Assembly (ASM)
https://mega.nz/#!4RBhGYwI!0kEI9wDW5ooHjgiQRJGfItO_3PqZz0R2kEWzbgl7p3U



HiFiAsm (Greg Concepcion & Heng Li)
Primary and Alt Assembly as one Tar.gz
https://mega.nz/#!FEQViSpL!7-_09OBKmdNro-CKdeMlMcHx-QCa3ZZOsxs1itfGFCE


FALCON- UNZIP (G.Concepcion)


Selected 99.97% Primary Assembly
https://mega.nz/#!RERgHYTT!i4EN3i23ypK3MnV4cusJIIM7Uf-Up3OL-IwsAIq_XsQ
Phase Genomics Hi-C data.
Forward Read (30Gb) & Reverse Read (30Gb).
https://mega.nz/file/QIJCSSRb#W80B2ct56kXCD7NlVsaJp3EC5n60Ts24Ub-e3pLEppE
https://mega.nz/file/gUJz3QDZ#PiODeEipI2hLol10peqdwKD76kxLOz8zJFnPfdincPs
HiCanu HIC Files
https://mega.nz/file/dRpHwKwY#1Qs0sL6s-JI8JMxZcOhKLkJaeESY2hKMZ3m0whPu7I8
CLR Jamaican Lion Assembly in NCBI as of 2020: HIC File.
https://mega.nz/file/gVZUnChZ#yNouUHhUCrFSe-9BKve78_YyXr5elmQVl2n4mn8Gbas





In May of 2020, Heng Li updated HiFiASM to purge duplicate haplotigs. This produce an 8.6Mb N50 assembly with BUSCO scores over 97.3%



Jamaican Lion Mother ONT data (14Gb zipped)
https://mega.nz/file/RJA1mK4J#M8rIxc8j4Yl7VOYcIYcl_G8Ye8DrjbMkKKu-XhJ2Vo8