Table 2 Assembly parameters for Delphinapterus leucas (beluga) and Monodon monoceros (narwhal)
Species | Reference (accession) | Name | Sequences | Assembler | Scaffolding approach |
|---|---|---|---|---|---|
Delphinapterus leucas | Jones et al. [22] (ASM228892v3) | DlJones | 10 × linked and illumina short reads | ABYSS, Supernova | Iterative scaffolding with RAILS, LINKS |
DNA zoo (ASM228892v2_HiC) | Dlzoo | Jones et al. (2017) v2 assembly, Hi-C | ABYSS, Supernova | Juicer, 3D-dna workflows | |
S_20_00693 (GCA_029941415) | Dl3 | PacBio CLR (36x), illumina short reads (92x), Hi-C (26x) | Flye v.2.9 | Juicer, 3D dna workflows | |
S_20_00702 (GCA_029941435) | Dl4 | PacBio CLR (40x), illumina short reads (86x), Hi-C (26x) | Flye v.2.9 | Juicer, 3D dna workflows | |
S_20_00703 (GCA_029941455) | Dl5 | PacBio CLR (53x), illumina short reads (75x), Hi-C (26x) | Flye v.2.9 | Juicer, 3D dna workflows | |
Monodon monoceros | Westbury et al. [2] (GCA_005125345.1) | MmWest | Illumina short reads, cross species mate pairs | SOAPdenovo v.2 | Cross-species scaffolding using Jones et al. [22] |
Damas et al. [1] GCA_005190385.3 | MmDamas | PacBio CLR (40x), Dovetail Omni-C reads, Bionano | FALCON-Unzip | Dovetail proprietary HiRise workflow, Bionano | |
0422/S_20_00708 (GCA_029941395) | Mm3 | PacBio CLR (58x), Illumina short reads (40x), Hi-C (39x) | Flye v.2.9 | Juicer, 3D dna workflows |