Try Boost
Accelerate your research with up to 20 hours of computing
Contact Us
scVI-Tools |

PeakVI

1
Omics
    More
Step 1: Upload your data

Matrix Data

Drag your file(s) or upload
  • Your file can be in the following formats:mtx
    • Matrix should be in .mtx format
or
Don’t have a file?
Use our demo data to run
Use Demo Data

Barcodes Data

Drag your file(s) or upload
  • Your file can be in the following formats:tsv
    • Data should have a .tsv extension, and should include barcode data
or
Don’t have a file?
Use our demo data to run
Use Demo Data
View example data

Peaks Data

Drag your file(s) or upload
  • Your file can be in the following formats:bed
    • Data should have a .bed extension, and should include peaks data
or
Don’t have a file?
Use our demo data to run
Use Demo Data
Step 2: Set Parameters
0.050
0.100
0.010
0.300
0.800
10
50
200
Step 3: Complete run profile

peakVI (Python class PEAKVI) is a generative model of scATAC-seq data that can subsequently be used for many common downstream tasks. The advantages of peakVI are: (i) Comprehensive in capabilities. (ii) Scalable to very large datasets (>1 million cells).

Example use case: Analyze and visualize scATACseq data

Limitations:
-Effectively requires a GPU for fast inference.
-Latent space is not interpretable, unlike that of a linear method.

Citation:
Tal Ashuach, Daniel A. Reidenbach, Nir Yosef (2021), PeakVI: A Deep Generative Model For Single Cell Chromatin Accessibility Analysis, BioRxiv.
Released:
Dec-20-2022
Previous Job Parameters
Your previous job parameters will show up here
so you can keep track of your jobs
Results
Parameters