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ccagc / QDNAseq

QDNAseq package for Bioconductor
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Downloads of PE100 bin annotations #50

Open lbeltrame opened 6 years ago

lbeltrame commented 6 years ago

Are these available anywhere? Both URLs mentioned in the code of getBinAnnotations don't seem to work on that regard.

ilarischeinin commented 6 years ago

The original pre-generated bin annotations (that accompanied the paper in Genome Res and the initial release of the software package) are available at https://qdnaseq-ireland.s3.amazonaws.com/. However, those include only SR50 ones, no PE100, and also only the hg19 genome build.

It's possible that someone currently working at the lab has made newer ones and made them publicly available, but I'm not aware of that myself.

HenrikBengtsson commented 5 years ago

For the record: The original pre-generated bin annotations (SR50) are in Bioconductor package QDNAseq.hg19. They are the same data as in the files currently hosted on AWS, but the latter will soon be removed (Issue #67)

HenrikBengtsson commented 5 years ago

Regarding building PE100 bin annotations for QDNAseq: See https://github.com/ccagc/QDNAseq/issues/59 for pointers how the hg19 SR50 was built. That issue is on how-to build hg38 SR50, but whatever the outcome will be there, it might be useful for PE100 as well.