Table 2 |
||||||
|
Overview of transcriptome assembly stages |
||||||
|
Library |
ABySS a) |
Inchworm a) |
||||
|
|
|
|
||||
|
N50 (kb) |
Max (kb) b) |
Total (Mb) c) |
N50 (kb) |
Max (kb) b) |
Total (Mb) c) |
|
|
|
|
|
||||
|
PK-Mid-flower |
0.73 |
6.55 |
19.9 |
1.36 |
7.42 |
26.5 |
|
PK-Early-flower |
0.64 |
4.94 |
16.7 |
1.06 |
6.11 |
24.0 |
|
PK-Pre-flower |
0.80 |
6.74 |
21.4 |
1.56 |
7.89 |
28.0 |
|
PK-Shoot |
0.69 |
6.16 |
20.2 |
1.34 |
7.41 |
26.8 |
|
PK-Stem |
0.80 |
6.55 |
22.9 |
1.67 |
11.55 |
29.3 |
|
PK-Root |
0.43 |
4.03 |
15.3 |
0.64 |
7.21 |
22.5 |
|
PK-tissue-all |
0.62 |
8.74 |
26.7 |
- |
- |
- |
|
PK-normalized1 |
- |
- |
- |
1.78 |
10.96 |
31.1 |
|
PK-normalized2 |
- |
- |
- |
1.72 |
7.89 |
34.2 |
|
PK-normalized3 |
- |
- |
- |
1.84 |
8.19 |
34.7 |
|
PK-normalized4 |
- |
- |
- |
1.71 |
7.10 |
32.1 |
|
PK-normalized-all |
1.18 |
7.31 |
42.1 |
- |
- |
- |
|
|
|
|||||
|
Library |
Combined |
|||||
|
|
|
|||||
|
N50 (kb) |
Max (kb) |
Total (Mb) |
||||
|
|
|
|||||
|
Non-redundant |
1.65 |
11.55 |
49.4 |
|||
|
Cap3 overlap merging |
1.80 |
12.11 |
41.0 |
|||
|
|
||||||
|
a) Fields marked with '-' indicate library/assembly combinations that were not analyzed. Statistics are shown for transcripts that passed initial QC and that could be oriented according to coding strand. b) Size of largest transcript in the assembly c) Total number of non-gap bases in the assembly |
||||||
|
van Bakel et al. Genome Biology 2011 12:R102 doi:10.1186/gb-2011-12-10-r102 |
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