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SCALE_scRNAseq

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Hey there,

Thanks for your interest in SCALE! This is the official Q&A forum for the R package SCALE we developed for modeling allele-specific expression by single-cell RNA sequencing. The official website for CODEX is at https://github.com/yuchaojiang/SCALE.

If you have questions or encounter any bugs running the software, feel free to post here or email us at SCALE_scRNAseq@googlegroups.com. We will reply as soon as I can.

Cheers,

Yuchao

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5/5/21

SCALE for CROP-seq data

Hi all, Before I spend time trying to figure out how exactly to use the tool, I wanted to ask if

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SCALE for CROP-seq data

Hi all, Before I spend time trying to figure out how exactly to use the tool, I wanted to ask if

5/5/21

6/13/20

About input spike inn file

Hello Thanks for tool, i am trying to SCALE analysis which is importated in my scSeq analysis, I was

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About input spike inn file

Hello Thanks for tool, i am trying to SCALE analysis which is importated in my scSeq analysis, I was

6/13/20

8/21/19

Hi Mikhail, Thanks for your interest and your inquiry. Unfortunately, I don't think SCALE would

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Hi Mikhail, Thanks for your interest and your inquiry. Unfortunately, I don't think SCALE would

8/21/19

raul cosentino, Yuchao Jiang2

8/21/19

Problem with allelic_kinetics function

Hi, The error you encountered was due to SCALE not being able to return non-negative estimates of the

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Problem with allelic_kinetics function

Hi, The error you encountered was due to SCALE not being able to return non-negative estimates of the

8/21/19

6/4/19

total expression instead of allele specific

Hello, I apologized for posting this question without reading this paper first. I'm hoping for a

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total expression instead of allele specific

Hello, I apologized for posting this question without reading this paper first. I'm hoping for a

6/4/19

angm...@gmail.com, Yuchao Jiang2

7/26/17

Correcting allele-specific counts by library size factor before input to SCALE?

HI Roy, Thanks for finding the bug. I've already corrected it and pushed the update. For library

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Correcting allele-specific counts by library size factor before input to SCALE?

HI Roy, Thanks for finding the bug. I've already corrected it and pushed the update. For library

7/26/17

5/13/17

Re: High proportion of genes with non-independent bursting

Hi Roy, SCALE needs to apply to a homogeneous population of cells, where the assumption is that the

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Re: High proportion of genes with non-independent bursting

Hi Roy, SCALE needs to apply to a homogeneous population of cells, where the assumption is that the

5/13/17

Jiang, Yuchao, Roy Moh Lik Ang7

5/10/17

RE: Enquiry about SCALE

Hi Yuchao, Understood. Thank you so much for your guidance on this matter! I am glad this matter has

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RE: Enquiry about SCALE

Hi Yuchao, Understood. Thank you so much for your guidance on this matter! I am glad this matter has

5/10/17

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