About ALS-Binary
ALS-Binary is a Shiny application that converts allele size data into
binary matrices for genetic analysis.
It supports multiple file formats (.csv, .txt, .xlsx), handles both
headered and headerless data, and produces Excel outputs with each
marker on a separate sheet.
The tool is intended for researchers working with microsatellite data,
providing a reproducible and user-friendly workflow.
Authors
Prasanth VP
PhD Scholar in Statistics at CUSAT and Associate Director of
Biostatistics at IQVIA.
He has over 20 years of international experience in biostatistics, data
science, and biometrics, spanning clinical research, pathological
evaluation, advanced statistical modeling, and integrative treatments
for chronic diseases.
📧 prasanth.stat@gmail.com
đź”— Google
Scholar
Dr. Subhash Chandra
Applied statistician with more than 50 years of professional experience
in teaching, training, consulting, and leadership across academic and
research environments worldwide.
His expertise lies in applying statistical and computational science to
agricultural, biological, environmental, ecological, and sociological
research.
He is a member of the International Biometric Society, Statistical
Society of Australia, Crop Science Society of America, Soil Science
Society of America, American Society of Agronomy, and Indian Society of
Agricultural Statistics.
đź”— Google
Scholar
Purpose
The app converts allele size data into binary matrices for genetic
analysis.
Users can upload raw data and repeat length information, preview them,
and generate binary outputs for each marker.
Steps to Use
- Upload Data File
- Formats:
.csv, .txt,
.xlsx
- Must contain Marker, Genotype, and allele sizes.
- If no headers, select “No” under Data contains column
headers.
The app will assign: Marker, Genotype, Allele_1, Allele_2, etc.
- Upload Repeat Length File
- Formats:
.csv, .txt,
.xlsx
- Contains repeat length information for each marker.
- Preview available under Repeat Length Preview.
- Delimiter Selection
- Choose Comma, Tab, or Pipe.
- Convert to Binary
- Click Convert to Binary.
- A progress bar shows the process.
- Once complete, a marker selector appears.
- Use the dropdown to view binary matrices.
- Download Results
- Click Download Results to save all binary matrices into an
Excel file.
- Each marker is written to a separate sheet.
- The filename includes today’s date (e.g.,
binary_output_2026-07-29.xlsx).
Notes
- Data file must have at least two columns: Marker and Genotype.
- Missing alleles should be coded as
0.
- Zeros are automatically removed before processing.
- Binary matrices show presence (1) or absence (0) of alleles per
genotype.