Ali Pirani
Any updates regarding this issue?
- [x] - Providing Unix exercise data to Zena to use for Data Carpentry. - [x] - Move Fastq QC and Trimming to Day 1 Afternoon. - [x] - Mention...
Make sure to run your tests and move the data to this directory. /nfs/esnitkin/micro612w19_fluxod/shared/data/
- Prerun Ariba MLST - remove MLST self exercise from Github - Add instructions to use MLST results to add an extra annotation layer to the CARD heatmap
- [x] - Choose K. pneumo genomes for BLAST, ARIBA & MLST (ZENA) Holt et al. (2015) PNAS, Genomic analysis of diversity, population structure, virulence, and antimicrobial resistance in Klebsiella...
- [ ] Run SPANDx on Shawn's enterobacter genomes. - [ ] Run Variant calling pipeline on Shawn's enterobacter genomes. - [ ] Add variant annotation script run for SPANDx...
Also, the xenium sample is a multi tissue array - can baysor handle multi-tissue arrays ?
Hi @VPetukhov, What are your thoughts on cells that are called denovo by Baysor (not called by Xenium)? Specifically, in tissue regions where we dont see any nuclei in their...
Thanks for mentioning the issue. I am still waiting for this issue to be resolved. Let me know if you find a solution.
Hi @VPetukhov , Would appreciate any help in resolving this issue. Thanks,