Cells assignment to clusters

[SamGG]

Hi,
The outputs of FAUST are multiple. Is there a map? ;-)
I would like to analyze FAUST clustering result on a synthetic dataset. Which output file should I use to get the cluster assigned to each cell of a flowset of a unique flowframe? I built compressed codes by reading annotationMatrix.csv file.
codes = apply(read.csv("c:/demo/FAUST/faustData/sampleData/V1/annotationMatrix.csv", header = FALSE)-1, 1, paste0, collapse = "")
But I am not sure because the cell counts do not match exactly the counts from count.long obtained as in the vignette. If you could help me...
Best,
Samuel

[evangreene]

Hi @SamGG ,
The final event-level cluster assignments by FAUST are stored in the file faustData/sampleData/[sampleName]/faustAnnotation.csv. Counts in this file should match the counts reported in faustData/faustCountMatrix.rds. The cluster assignments in faustAnnotation.csv use an internal representation that is different than the phenotypes reported in faustCountMatrix.rds. The reported phenotypes can be mapped to the internal representations using the filefaustData/metaData/colNameMap.rds.
Hope this helps,
Evan

[SamGG]

Thanks. I will look at it.