User: manishaB

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manishaB0
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Posts by manishaB

<prev • 7 results • page 1 of 1 • next >
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Comment: C: Cross-specie Integration Using Seurat
... Okay, I got the issue. Thank you so much for the provided direction, it really helped. ...
written 4 weeks ago by manishaB0
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Comment: C: Cross-specie Integration Using Seurat
... Hey, I guess what you are mentioning is for Seurat's SCTransform pipeline. In my case, initially RNA assay would be used for integration purpose which will create a new "corrected" matrix for integrated datasets ,used for comparative downstream analysis. ...
written 4 weeks ago by manishaB0
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Comment: C: Cross-specie Integration Using Seurat
... No, gene names are different across the datasets. How can be they exactly same, as the datasets are of different species? Also, anchors were calculated, although very less in number. What is expected here? ...
written 4 weeks ago by manishaB0
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Cross-specie Integration Using Seurat
... Hello, I am following Seurat's pipeline https://satijalab.org/seurat/v3.0/immune_alignment.html for integrating cross-specie data. In the code below, object.list inputs a list of Seurat objects.It gives warning: skin.anchors <- FindIntegrationAnchors(object.list = list(skin2, skin ...
R seurat written 4 weeks ago by manishaB0
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Comment: C: Single-cell Datasets Integration
... Hey, this really makes sense! The code ran successfully when I removed the mouse Seurat object from the list, all the 4 human datasets got integrated. But then, how should I proceed to merge data across species (say human AND mouse as of now) ? I think I am missing something here! Would like to rec ...
written 8 weeks ago by manishaB0
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Single-cell Datasets Integration
... Hi folks! I am trying to integrate human and mouse sc data using Seurat's pipeline. There are 4 human datasets for humans and 1 for mouse. Getting an error while finding anchors for integration. Code used, data.anchors <- FindIntegrationAnchors(object.list = list(hf1_ob,hf2_ob,hf3_ob,hf4_ob ...
single cell data integration seurat written 8 weeks ago by manishaB0 • updated 8 weeks ago by jared.andrews077.9k
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Find Orthologs On Biomart
... Hi there,I am new to biological data analysis,so need some idea and suggestions to solve problems.Hoping for a positive response from all. Thanks in advance. I need to find 1-to-1 orthologous genes between humans and mouse,using Biomart. Where can I exactly get the section for the same? I can find ...
gene written 4 months ago by manishaB0 • updated 4 months ago by Shalu Jhanwar470

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