Last modified 2026-02-20 |
Work with File Sets (Tutorial)
 | Abbreviations Key |
| HISE | Human Immune System Explorer |
| IDE | integrated development environment |
| QC | quality control |
| scRNA-seq | single-cell RNA sequencing |
At a Glance
This document explains how to create and download file sets in HISE. If you have questions, contact Support.
When to Use This Feature
Use file sets when you want to save and organize Advanced Search results of particular interest:
- Create a file set as a reuseable input that you and your collaborators can read into IDE sessions across multiple analyses.
- Save a group of pipeline output files, such as QC reports or labeled scRNA-seq files.
- Preserve specified data sets to maintain a coherent, traceable workflow.
- Capture final data sets to support a publication.
- Create file sets for AI/ML training runs.
Instructions
Create a file set
To create a file set from the results of an advanced search, follow the instructions below.
1. Navigate to HISE, and use your organizational email address to sign in.
2. In the top navigation menu, click RESEARCH, and choose Advanced Search from the drop-down list.
3. Create a query or use a saved query. For details, see Use Advanced Search for Basic Queries (Tutorial).
A. From the floating menu, choose CREATE FILE SET.
B. On the Create New File Set page, in the File Set Details dialog box, enter the requested information, and click NEXT.
C. (Optional) On the Create New File Set page, in the Public File Naming dialog box, add a public-facing name for your file set, and click NEXT.
D. On the Create New File Set page, in the Review and Submit dialog box, review the details, and click CREATE FILE SET.
E. Review the confirmation message.
Download a file set
You can share a file set for others to analyze or use as a starting point for their own research. To download a file set, follow the steps below.
1. Navigate to HISE, and use your organizational email address to sign in.
2. In the top navigation menu, click COLLABORATION SPACE.
3. From the Your Studies section, choose the study that contains the file you want to download (in this case, scRNA scATAC Taiji v2).
4. From the left navigation menu, click FILE SETS.
5. Find the file set that contains the file you want to download, and click IDE SCRIPT.
6. In the Load files in IDE dialog box, click COPY SCRIPT.
7. To open an IDE, navigate to RESEARCH > IDEs, and paste in the script you just copied. For details, see Create Your First HISE IDE (Tutorial).
Related Resources
Create Your First HISE IDE (Tutorial)