Tasic_counts_vignette: A 'Matrix' with transcript-level counts derived from our case...
In statOmics/satuRn: Scalable Analysis of Differential Transcript Usage for Bulk and Single-Cell RNA-sequencing Applications
Tasic_counts_vignette R Documentation
A 'Matrix' with transcript-level counts
derived from our case study which builds on the dataset of Tasic et al.
We used Salmon (V1.1.0) to quantify all L5IT cells
(both for ALM and VISp tissue) from mice with a normal eye condition.
From these cells, we randomly sampled 20 cells of each of the following
cell types to use for this vignette;
L5_IT_VISp_Hsd11b1_Endou, L5_IT_ALM_Tmem163_Dmrtb1 and L5_IT_ALM_Tnc.
The data has already been leniently filtered with
the 'filterByExpr' function of edgeR. After this, the transcripts of the
first 3000 genes were retained to further reduce the size of the data object.
Description
A 'Matrix' with transcript-level counts
derived from our case study which builds on the dataset of Tasic et al.
We used Salmon (V1.1.0) to quantify all L5IT cells
(both for ALM and VISp tissue) from mice with a normal eye condition.
From these cells, we randomly sampled 20 cells of each of the following
cell types to use for this vignette;
L5_IT_VISp_Hsd11b1_Endou, L5_IT_ALM_Tmem163_Dmrtb1 and L5_IT_ALM_Tnc.
The data has already been leniently filtered with
the 'filterByExpr' function of edgeR. After this, the transcripts of the
first 3000 genes were retained to further reduce the size of the data object.
Usage
data(Tasic_counts_vignette)
Format
An object of class matrix (inherits from array) with 6130 rows and 60 columns.
statOmics/satuRn documentation built on March 9, 2023, 3:43 p.m.
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| Tasic_counts_vignette | R Documentation |
A 'Matrix' with transcript-level counts derived from our case study which builds on the dataset of Tasic et al. We used Salmon (V1.1.0) to quantify all L5IT cells (both for ALM and VISp tissue) from mice with a normal eye condition. From these cells, we randomly sampled 20 cells of each of the following cell types to use for this vignette; L5_IT_VISp_Hsd11b1_Endou, L5_IT_ALM_Tmem163_Dmrtb1 and L5_IT_ALM_Tnc. The data has already been leniently filtered with the 'filterByExpr' function of edgeR. After this, the transcripts of the first 3000 genes were retained to further reduce the size of the data object.
Description
A 'Matrix' with transcript-level counts derived from our case study which builds on the dataset of Tasic et al. We used Salmon (V1.1.0) to quantify all L5IT cells (both for ALM and VISp tissue) from mice with a normal eye condition. From these cells, we randomly sampled 20 cells of each of the following cell types to use for this vignette; L5_IT_VISp_Hsd11b1_Endou, L5_IT_ALM_Tmem163_Dmrtb1 and L5_IT_ALM_Tnc. The data has already been leniently filtered with the 'filterByExpr' function of edgeR. After this, the transcripts of the first 3000 genes were retained to further reduce the size of the data object.
Usage
data(Tasic_counts_vignette)
Format
An object of class matrix (inherits from array) with 6130 rows and 60 columns.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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