sca_mait: Create MAIT data

In RGLab/MASTdata: This is the data used for the MAST paper

Description

Processed single cell RNA seqdata for our single cell RNA seq paper from our MAIT study.

Processed single cell RNA seqdata for our single cell RNA seq paper from our MAIT study.

Format

This is a SingleCellAssay object

cData

Cell level feature annotation.

• wellKey unique identifier

• condition stimulated or unstimulated

• ncells number of cells in the well

• ngeneson percentage of genes that are turned on

• cngeneson centered ngeneson

• TRAV1 TRAV1

• TRBV6 TRBV6

• TRBV4 TRBV4

• TRBV20 TRBV20

• alpha alpha chain

• beta beta chain

• ac alpha chain + stimulation

• bc beta chain + stimulation

fData

Gene level feature annotation.

s

• primerid entrez id

• entrez entrez id

• symbolid gene symbols

exprs

Expression matrix

Details

This data set contains the processed data for our fake assay, with 100 replicated measurements for each of four subjects.

This data set contains the processed data for our fake assay, with 100 replicated measurements for each of four subjects.

Note

We used UCSC hg19 as the reference genome and used RSEM (bowtie) to align and calculate the count and the TPM matrix.

We used UCSC hg19 as the reference genome and used RSEM (bowtie) to align and calculate the count and the TPM matrix.

Author(s)

Jingyuan Deng, Masanao Yajima, Andrew McDavid, Greg Finak

Jingyuan Deng, Masanao Yajima, Andrew McDavid, Greg Finak

Source

The data was from Matin

The data was from Matin

RGLab/MASTdata documentation built on May 8, 2019, 5:52 a.m.