The folder test_dataset_abemus contains a ready to use dataset to explore ABEMUS workflow as described in the Usage page of the Wiki.
Download the test_dataset_abemus.tar.gz file, extract with tar xvzf test_dataset_abemus.tar.gz and follow steps as reported in the test_example.
You can find platform-specific Error Models computed by ABEMUS as described and investigated in the original manuscript (Casiraghi et al. 2019, submitted) at https://bcglab.cibio.unitn.it/abemus_models
| Target | Folder Name | Target Size | Sequencing | Institution | n. Controls | Seq. Protocol | PMID |
|---|---|---|---|---|---|---|---|
| Targeted Custom Amplicon Panel AmpliSeq | AmpliSeq | 40 kbp | IonTorrent PGM | ICR | 113 | SE | 25232177, 26537258 |
| Illumina True Seq Custom Amplicon | TSCA | 106 kbp | Illumina MiSeq | UNITN | 3 | PE | -- |
| Roche NimbleGen SeqCap Exome v3 | Nimble_Exome | 64 Mbp | Illumina HiSeq 2000 | WCM | 40 | SE | Beltran et al, submitted |
| Roche NimbleGen N250 targeted panel | Nimble_N250 | 3.2 Mbp | Illumina HiSeq 2000 | WCM | 20 | PE | -- |
| Agilent HaloPlex Exome | Haloplex | 36 Mbp | Illumina HiSeq 2000 | WCM | 50 | PE | 26855148 |