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csoneson / alevinQC

Create QC and summary reports for Alevin output
https://csoneson.github.io/alevinQC/
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is it possible to make alevinQC compatible with the simpleaf output? #31

Closed crazyhottommy closed 7 months ago

crazyhottommy commented 9 months ago

The folder structures are like:


├── af_map
│   ├── alevin
│   │   └── alevin.log
│   ├── aux_info
│   │   └── meta_info.json
│   ├── cmd_info.json
│   ├── libParams
│   ├── logs
│   │   └── salmon_quant.log
│   └── unmapped_bc_count.bin
├── af_quant
│   ├── alevin
│   │   ├── quants_mat.mtx
│   │   ├── quants_mat_cols.txt
│   │   └── quants_mat_rows.txt
│   ├── collate.json
│   ├── featureDump.txt
│   ├── generate_permit_list.json
│   ├── permit_freq.bin
│   ├── permit_map.bin
│   ├── quant.json
│   └── unmapped_bc_count_collated.bin
└── simpleaf_quant_log.json

Thanks!

csoneson commented 9 months ago

This should already be supported - see e.g. simpleafQCReport(). Let me know if this doesn't work.