# Importing Data from DADA2 into MicrobiomeStat

This guide will walk you through the steps required to import data from DADA2 into MicrobiomeStat.

### Download Necessary Files

{% file src="<https://3375851868-files.gitbook.io/~/files/v0/b/gitbook-x-prod.appspot.com/o/spaces%2FhFAmY4z7d1R15Cv49vXQ%2Fuploads%2FDCUmGkbFbIO8bvWw0QoL%2Fdada2_seqtab.rds?alt=media&token=439f0993-7bf4-4bb6-bab5-3fb3bfdcdac3>" %}
Sequence table (`seq_tab`) - This table from DADA2 contains sample-specific sequence abundance data. Rows represent samples, and columns correspond to sequences.
{% endfile %}

{% file src="<https://3375851868-files.gitbook.io/~/files/v0/b/gitbook-x-prod.appspot.com/o/spaces%2FhFAmY4z7d1R15Cv49vXQ%2Fuploads%2F2r5VAvpu96mYgXtmhzm8%2Fdada2_taxtab.rds?alt=media&token=a696f7e6-ad4e-47b6-aa73-acb0da3c850f>" %}
Taxonomy assignment table (`tax_tab`) - This table provides taxonomic classifications for sequences, helping users understand the biological context of the identified sequences.
{% endfile %}

{% file src="<https://3375851868-files.gitbook.io/~/files/v0/b/gitbook-x-prod.appspot.com/o/spaces%2FhFAmY4z7d1R15Cv49vXQ%2Fuploads%2FtnfjxaGfBMfKVNWWLYVC%2Fdada2_samdata.txt?alt=media&token=1f6762d6-1700-481a-a637-9c9604620b14>" %}
Sample metadata table (\`sam\_tab\`) - This table offers detailed metadata for each sample, enriching the context and facilitating more in-depth analyses.
{% endfile %}

### Code to Import Data

```r
# This function requires the `Biostrings` and `yaml` packages.
 
# If you encounter issues when running the example code, please ensure that you have installed and loaded these packages.
library(Biostrings)
library(yaml)
# Read the sequence table from the downloaded RDS file
seq_tab <- readRDS("path_to_your_downloaded_folder/dada2_seqtab.rds")

# Read the taxonomy table from the downloaded RDS file
tax_tab <- readRDS("path_to_your_downloaded_folder/dada2_taxtab.rds")

# Read the sample metadata from the downloaded txt file
sam_tab <- read.table(
  "path_to_your_downloaded_folder/dada2_samdata.txt",
  sep = "\t",
  header = TRUE,
  row.names = 1
)

# Convert DADA2 data into a MicrobiomeStat data object
data_obj <- mStat_import_dada2_as_data_obj(
  seq_tab = seq_tab,
  tax_tab = tax_tab,
  sam_tab = sam_tab
)
```

<figure><img src="https://3375851868-files.gitbook.io/~/files/v0/b/gitbook-x-prod.appspot.com/o/spaces%2FhFAmY4z7d1R15Cv49vXQ%2Fuploads%2F0ts1LGxVUUELACqr1cKU%2FScreenshot%202023-10-10%20at%2014.34.05.png?alt=media&#x26;token=ae8b1b36-f7d1-4041-ae7b-dfeb0041480e" alt=""><figcaption><p>Structure of the MicrobiomeStat data object after importing DADA2 data. This visualization highlights the different components of the data object, including the feature table, taxonomy table, and sample metadata, facilitating a comprehensive understanding of the imported dataset.</p></figcaption></figure>

{% hint style="info" %}
Note: Ensure to replace `"path_to_your_downloaded_folder"` with the actual path where you've saved the downloaded files.
{% endhint %}