WebJun 9, 2024 · From my understanding, it seems all three of the main batch alignment methods (CytoNorm, CytofBatchAdjust, and CytofRUV) would require a reference population for each marker, meaning healthy PBMCs won’t be able to capture these. Our samples get sent to us as frozen, unstained PBMCs, so I am unable to do any fresh staining or freezing … WebMay 9, 2024 · CytofRUV can correct for batch effects and integrate data from large numbers of patients and conditions across batches, to confidently compare cellular changes and …
Recluster with new panel · Issue #335 · HelenaLC/CATALYST
WebMay 9, 2024 · This paper presents CytofRUV, a new tool to remove technical batch effects in CYTOF data, inspired by tools used in the transcriptomics field. There is still a strong need for such tools and I expect this tool to be a valuable addition to the cytometry field. I especially appreciate the authors' effort in providing multiple evaluation measures ... WebJun 28, 2024 · The FCS files were pre-processed with bead normalization and debarcoding according to the script from the CytofRUV supplementary files (using CATALYST). The Krieg1, Krieg2, and Krieg3 datasets 39 comprise 30, 26, and 25 markers, and each contain 60 samples. They were, according to the original publication, processed as four experimental … helenhoffman ubs new york city email address
CytofRUV: Removing unwanted variation to integrate multiple …
WebCytofRUV is a computational algorithm which permits the integration of data across CyTOF batches. We provided a vignette Introduction_to_CytofRUV.Rmd on our github webpage … WebSep 7, 2024 · Mass cytometry (CyTOF) is a technology that has revolutionised single cell biology. By detecting over 40 proteins on millions of single cells, CyTOF allows the … WebAug 3, 2024 · CytofRUV is a computational algorithm which permits the integration of data across CyTOF batches. We provided a vignette Introduction_to_CytofRUV.Rmd that … helen hirsch horowitz