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Table 1 Input datasets for TRITEX

From: TRITEX: chromosome-scale sequence assembly of Triticeae genomes with open-source tools

Name

Library type (number1)

Insert size

Read length

Coverage2

PE450

PCR-free paired-end (2)

400–470 bp

2 × 250 bp

70×

PE800

PCR-free paired-end (2)

700–800 bp

2 × 150 bp

30×

MP3

Nextera mate-pair (2)

2–4 kb

2 × 150 bp

30×

MP6

Nextera mate-pair (2)

5–7 kb

2 × 150 bp

30×

MP9

Nextera mate-pair (2)

8–10 kb

2 × 150 bp

30×

10X

10X Chromium (2)

 

2 × 150 bp

30×

Hi-C

TCC [23] or in-situ Hi-C [24] (1)

 

2 × 100 bp

200–400 million read pairs

  1. 1Number of independent libraries to be prepared
  2. 2Haploid genome coverage for paired-end, mate-pair, and 10X libraries. As Hi-C analysis is count-based, read numbers are more relevant than sequence amount