Add window-based variant placement strategy for Direct Probe Coordinates mode

Use exact amplicon coordinates as read length in PCR amplicon mode

Fix TypeError when fully_covered_bed_path is None

Support hg19 reference genome and PCR Amplicon sequencing style

Support variant generation in Direct BED Mode (ignoring MANE transcripts) and improve dynamic tracks in igv.js

Support loading MANE transcripts in igv.js, add toggles for CDS/intron/off-target variants, and add MANE transcripts download

Copy static files to both CWD static and script static paths to resolve 404

Add path diagnostics to Debug Info sidebar

Fix NameError by initializing uploaded_bed from session state before sidebar

Update Dockerfile to copy .streamlit config and update src/ files with customized app code

Create packages.txt

Create requirements.txt

Create pipeline.py

Update src/streamlit_app.py

Duplicate from streamlit/streamlit-template-space