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FredHutch / Galeano-Nino-Bullman-Intratumoral-Microbiota_2022

Analysis code used in Galeano Nino et al., Impact of Intratumoral Microbiota on Spatial and Cellular Heterogeneity in human cancer. 2022
MIT License
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GATK pathseq #4

Closed zhangshuyue1 closed 1 year ago

zhangshuyue1 commented 1 year ago

hello，when I run the GATK pathseq,how can I get all microbial reference fasta?

hanruiw commented 1 year ago

Hi, I would suggest you to check out the PathSeq documentations and tutorials for any questions regarding PathSeq: https://gatk.broadinstitute.org/hc/en-us/articles/360035889911--How-to-Run-the-Pathseq-pipeline Good luck with your analysis!