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For instance, the GRcm38 provided with the 1.2.2 chipseq version appears to have 164 entries, while the mm10 one in the followig link https://github.com/Boyle-Lab/Blacklist/tree/master/lists (version 2) has 3435 entries.
For human there's even a newer update version3, it would be great if the most up to date versions would be provided with the pipelines
Would it be possible to update them please? @jose Espinosa-Carrasco
The text was updated successfully, but these errors were encountered:
Thanks for reporting @sopenaml ! We are working on the transition to DSL2 and we should also include the updated blacklists. Anyway, if you want to provide the updated blacklist bed with the current stable version of the pipeline, you could use the blacklist parameter to the nextflow command you use e.g. "--blacklist /path/to/your/updated/file/mm10-blacklist.bed"
The blacklists used by the pipeline seem to be an old version, with fewer entries than the ones we can find in the newly updated versions here: https://sites.google.com/site/anshulkundaje/projects/blacklists
For instance, the GRcm38 provided with the 1.2.2 chipseq version appears to have 164 entries, while the mm10 one in the followig link https://github.com/Boyle-Lab/Blacklist/tree/master/lists (version 2) has 3435 entries.
For human there's even a newer update version3, it would be great if the most up to date versions would be provided with the pipelines
Would it be possible to update them please? @jose Espinosa-Carrasco
The text was updated successfully, but these errors were encountered: