Publications by Nasir Mahmood Abbasi
RPCA-CCA-Harmony Integration of PBMC10x with NormalizeData-VST on samples part3
1. load libraries 2. Load Seurat Object #Load Seurat Object merged from cell lines and a control(PBMC) after filtration load("../../../0-IMP-OBJECTS/All_Samples_Merged_with_10x_Azitmuth_Annotated.robj") All_samples_Merged An object of class Seurat 36752 features across 59355 samples within 5 assays Active assay: RNA (36601 features, 0 variable...
16536 sym Python (79949 sym/135 pcs) 31 img
Harmony Integration of PBMC10x-Part1
1. load libraries 2. Load Seurat Object #Load Seurat Object merged from cell lines and a control(PBMC) after filtration SS_All_samples_Merged <- load("../../../0-IMP-OBJECTS/All_Samples_Merged_with_10x_Azitmuth_Annotated_SCT_HPC_without_harmony_integration.robj") All_samples_Merged An object of class Seurat 64169 features across 59355 samples w...
7057 sym Python (7177 sym/29 pcs) 12 img
Harmony Integration of PBMC10x with SCT on samples part2
1. load libraries 2. Load Seurat Object load("../../../0-IMP-OBJECTS/All_Samples_Merged_with_10x_Azitmuth_Annotated_SCT_HPC_without_harmony_integration.robj") All_samples_Merged An object of class Seurat 64169 features across 59355 samples within 6 assays Active assay: SCT (27417 features, 3000 variable features) 3 layers present: counts, d...
4140 sym Python (6898 sym/33 pcs) 7 img
Merged All samples with PBMC_10x and apply SCT on 1:22
1. load libraries Loading required package: SeuratObject Loading required package: sp Attaching package: 'SeuratObject' The following objects are masked from 'package:base': intersect, t ── Installed datasets ──────────────────────────────── SeuratData v0.2.2.9001 ── ✔ ...
25603 sym R (32603 sym/152 pcs) 32 img
Merged All samples with PBMC_10x
1. load libraries Loading required package: SeuratObject Loading required package: sp Attaching package: 'SeuratObject' The following objects are masked from 'package:base': intersect, t ── Installed datasets ──────────────────────────────── SeuratData v0.2.2.9001 ── ✔ ...
23642 sym R (37605 sym/182 pcs) 36 img
Harmony Integration of PBMC10x with SCT on samples
1. load libraries 2. Load Seurat Object #Load Seurat Object merged from cell lines and a control(PBMC) after filtration SS_All_samples_Merged <- load("../../../0-IMP-OBJECTS/All_Samples_Merged_with_10x_Azitmuth_Annotated_SCT_HPC.robj") All_samples_Merged An object of class Seurat 64169 features across 59355 samples within 6 assays Active assay:...
11054 sym Python (25219 sym/63 pcs) 19 img
Merged All samples with PBMC_10x
1. load libraries Loading required package: SeuratObject Loading required package: sp Attaching package: 'SeuratObject' The following objects are masked from 'package:base': intersect, t ── Installed datasets ──────────────────────────────── SeuratData v0.2.2.9001 ── ✔ ...
23632 sym R (39819 sym/180 pcs) 36 img
Merged All samples with PBMC_10x
1. load libraries Loading required package: SeuratObject Loading required package: sp Attaching package: 'SeuratObject' The following objects are masked from 'package:base': intersect, t ── Installed datasets ──────────────────────────────── SeuratData v0.2.2.9001 ── ✔ ...
23583 sym R (38085 sym/179 pcs) 36 img
Merged All samples with PBMC_10x_on_HPC
1. load libraries Loading required package: SeuratObject Loading required package: sp Attaching package: 'SeuratObject' The following objects are masked from 'package:base': intersect, t ── Installed datasets ──────────────────────────────── SeuratData v0.2.2.9001 ── ✔ ...
23583 sym R (38514 sym/179 pcs) 36 img
SCT normalization of merged samples and Harmony Integration
1. load libraries Le chargement a nécessité le package : SeuratObject Le chargement a nécessité le package : sp Attachement du package : ‘SeuratObject’ Les objets suivants sont masqués depuis ‘package:base’: intersect, t Registered S3 methods overwritten by 'htmltools': method from print.html ...
21251 sym R (162015 sym/102 pcs) 35 img