Floris Barthel fpbarthel
fpbarthel
/ reproduce_karyoscope_hg002.sh
Last active
July 29, 2026 15:15
Reproduce KaryoScope v2.1 karyotyping of the T2T-HG002 v1.1 diploid assembly end to end (macOS / Apple Silicon, ~20 min at 8-10 threads, 16 GB+ RAM)
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| #!/usr/bin/env bash | |
| # ============================================================================= | |
| # Reproduce KaryoScope annotation + karyotype plots on HG002 (T2T-HG002 v1.1) | |
| # ----------------------------------------------------------------------------- | |
| # Tested on: MacBook Pro (Apple M1 Max) - 10 cores (8P + 2E), 32 GB RAM | |
| # macOS 26.5.1 | KaryoScope v2.1 | |
| # | |
| # Requirements | |
| # - Homebrew https://brew.sh | |
| # - Conda (miniforge) https://docs.conda.io |