forked from ayushnoori/apoe-glia
-
Notifications
You must be signed in to change notification settings - Fork 0
/
index.Rmd
48 lines (37 loc) · 1.59 KB
/
index.Rmd
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
---
title: "About"
description: |
We investigated the differential effects of *APOE* alleles on the microglia and astrocyte transcriptome in the absence and presence of neuritic plaques (NPs) using bulk brain RNA-seq data from two large brain banks and performed follow-on experiments in *APOE* knock-in mice.
site: distill::distill_website
output:
distill::distill_article:
toc: true
---
```{r include = FALSE, eval = FALSE}
# to render website
library(rmarkdown)
library(distill)
render_site()
# to remove files
clean_site()
```
# Setup
Install [R](https://www.r-project.org/) to run our code.
# Documentation
To read our documented code, please visit [mindds.github.io/apoe-glia](https://mindds.github.io/apoe-glia) or see below.
### Functions
* [Models](https://mindds.github.io/apoe-glia/models)
* [Spectral Clustering](https://mindds.github.io/apoe-glia/spectral-clustering)
### ROSMAP
* [Define Variables](https://mindds.github.io/apoe-glia/ROSMAP-variables)
* [Pre-Process Data](https://mindds.github.io/apoe-glia/ROSMAP-preprocess)
* [Microglia Analysis](https://mindds.github.io/apoe-glia/ROSMAP-microglia)
* [Astrocyte Analysis](https://mindds.github.io/apoe-glia/ROSMAP-astrocyte)
### MSBB
* [Define Variables](https://mindds.github.io/apoe-glia/MSBB-variables)
* [Merge Data](https://mindds.github.io/apoe-glia/MSBB-merge)
* [Microglia Analysis](https://mindds.github.io/apoe-glia/MSBB-microglia)
### qPCR Analysis
* [qPCR Analysis](https://mindds.github.io/apoe-glia/qPCR-analysis)
# Code Availability
Our full codebase is available for download on [GitHub](https://github.com/mindds/apoe-glia).