Table 2:
Examples of data types and analyses included in gEVAL and their ability to detect issues and errors
| Data type | Software | Analysis type supported | |||
|---|---|---|---|---|---|
| Misjoins | Missed joins | Duplications | Collapses | ||
| Long reads | Minimap2 [43], winnowmap [44] | x | x | x | x |
| Bionano | Bionano Solve | x | x | x | x |
| 10X linked reads | Break10x [28] | x | |||
| cDNAs/gene sets | Blat [45], pblat [46] | x | x | x | |
| Self-alignments | Mummer [47] | x | |||
| Other assemblies | Compara [40] | x | x | ||
| Centromeres | Repeatmasker [40, 48], centromere db [32] | x | x | ||
| Telomeres | Find_telomere [33] adapted to work with any sequence | x | x | ||
| Genetic and other maps | EPCR [49], Blast [50] | x | x | x | |
cDNA: complementary DNA.