UCell | An R package for single-cell gene signature | Genomics library

by carmonalab R Version: v1.3 License: GPL-3.0

X-Ray Key Features Code Snippets(3)Community Discussions(4)Vulnerabilities Install Support

kandi X-RAY | UCell Summary

UCell is a R library typically used in Artificial Intelligence, Genomics applications. UCell has no bugs, it has no vulnerabilities, it has a Strong Copyleft License and it has low support. You can download it from GitHub.

UCell is an R package for calculating gene signatures in single-cell datasets. UCell scores, based on the Mann-Whitney U statistic, are robust to dataset size and heterogeneity, and their calculation demands relatively less computing time and memory than other available methods, enabling the processing of large datasets (>10^5 cells). UCell can be applied to any cell vs. gene data matrix, and includes functions to directly interact with Seurat objects.

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Quality

Security

License

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Support

UCell has a low active ecosystem.

It has 22 star(s) with 6 fork(s). There are 5 watchers for this library.

It had no major release in the last 12 months.

There are 2 open issues and 12 have been closed. On average issues are closed in 14 days. There are no pull requests.

It has a neutral sentiment in the developer community.

The latest version of UCell is v1.3

Quality

UCell has no bugs reported.

Security

UCell has no vulnerabilities reported, and its dependent libraries have no vulnerabilities reported.

License

UCell is licensed under the GPL-3.0 License. This license is Strong Copyleft.

Strong Copyleft licenses enforce sharing, and you can use them when creating open source projects.

Reuse

UCell releases are available to install and integrate.

Installation instructions, examples and code snippets are available.

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UCell Key Features

No Key Features are available at this moment for UCell.

UCell Examples and Code Snippets

Test the package

Lines of Code : 8

License : Strong Copyleft (GPL-3.0)

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library(UCell)

my.matrix <- UCell::sample.matrix
gene.sets <- list(Tcell_signature = c("CD2","CD3E","CD3D"),
			Myeloid_signature = c("SPI1","FCER1G","CSF1R"))

scores <- ScoreSignatures_UCell(my.matrix, features=gene.sets)
head(scores)

New in version 1.1.0

Lines of Code : 6

License : Strong Copyleft (GPL-3.0)

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markers <- list()
markers$Tcell_gd <- c("TRDC+", "TRGC1+", "TRGC2+", "TRDV1+","TRAC-","TRBC1-","TRBC2-")
markers$Tcell_NK <- c("FGFBP2+", "SPON2+", "KLRF1+", "FCGR3A+", "CD3E-","CD3G-")
markers$Tcell_CD4 <- c("CD4","CD40LG")
markers$Tcell

Package Installation

Lines of Code : 3

License : Strong Copyleft (GPL-3.0)

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library(remotes)
remotes::install_github("carmonalab/UCell")

remotes::install_github("carmonalab/UCell", ref="dev")

Community Discussions

Trending Discussions on UCell

openpyxl ValueError formatting new rows of data

The multi-part identifier "MyNewDatabase.dbo.df_umts_relation.technology" could not be bound

Msg 4145, Level 15, State 1, Line 5 An expression of non-boolean type specified in a context where a condition is expected, near 'ucell'

How to create query that's update columns value using sql server or pandas function even

QUESTION

openpyxl ValueError formatting new rows of data

Asked 2020-Aug-13 at 22:10

The following code works great the first time I run it (when it creates a new spreadsheet). When I try to run it again (update existing sheet) to add more data (additional rows) I get the following error

Traceback (most recent call last): File "C:/PythonPrograms/Workout Program/test_excel_format.py", line 35, in cell.style = wdata

File "C:\Users\Mark\AppData\Local\Programs\Python\Python37\lib\site-packages\openpyxl\styles\named_styles.py", line 193, in append raise ValueError("""Style {0} exists already""".format(style.name)) ValueError: Style wdata exists already

...

ANSWER

Answered 2020-Aug-13 at 22:10

I don't see any way to use a NamedStyle to update the format for rows added to an existing workbook/sheet. If you define the NamedStyle you get the "Already Exists" error. If you don't then you get an error that the "NamedStyle is not defined". The doc states pretty much verbatim what Charlie Clark said in his comment above, "Styles registered automatically on their first use and can then be referenced by name." It does not elaborate or show examples of how to use an existing NamedStyle. Given this I gave up trying to use a NamedStyle and updated the code as follows to make it work. If there is a way to do this with NamedStyle I'd love to see it.

Here's the updated code.

Source https://stackoverflow.com/questions/63330504

QUESTION

The multi-part identifier "MyNewDatabase.dbo.df_umts_relation.technology" could not be bound

Asked 2020-Feb-28 at 10:45

I have created a query as the below one:

...

ANSWER

Answered 2020-Feb-28 at 10:45

if my undestanding is correct you are using 2 alias for the table[MyNewDatabase].[dbo].[df_umts_relation] Try this.

Source https://stackoverflow.com/questions/60449572

QUESTION

Msg 4145, Level 15, State 1, Line 5 An expression of non-boolean type specified in a context where a condition is expected, near 'ucell'

Asked 2020-Feb-14 at 00:53

I am trying to add another column using LEFT JOIN after ON as I want to look join multiple columns

So I tried using some thing like this

...

ANSWER

Answered 2020-Feb-13 at 17:23

This is not valid T-SQL (or at least, will not do what you want):

Source https://stackoverflow.com/questions/60213347

QUESTION

How to create query that's update columns value using sql server or pandas function even

Asked 2020-Feb-13 at 15:40

Now I have a table something like the below table:

esn_missing_in_DF_umts

...

ANSWER

Answered 2020-Feb-13 at 15:40

The best thing is to make the query as if you were writing a SELECT statement with the Case clause in it. Once it works as expected, you can amend it for your update.

So in this example, if the main tables Column = bla, then get the data from the first joined table, else the other table.

Quick amendment Make sure its all rows you are happy to update, else remember to put in a where statement. That's why its best to work out your logic in a SELECT and move on from there.

I think you want something like this:

Source https://stackoverflow.com/questions/60208407

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