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Sequencing and sequence data preprocessing.

AS Andrea Söllinger
AT Alexander Tøsdal Tveit
MP Morten Poulsen
SN Samantha Joan Noel
MB Mia Bengtsson
JB Jörg Bernhardt
AH Anne Louise Frydendahl Hellwing
PL Peter Lund
KR Katharina Riedel
CS Christa Schleper
OH Ole Højberg
TU Tim Urich
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Illumina HiSeq 2500 paired-end (125-bp) sequencing was performed on cDNA at the Next Generation Sequencing Facility of the Vienna Biocenter Core Facilities. The template fragment size was adjusted such that paired sequence reads could be overlapped. We used PRINSEQ lite v. 0.20.4 (59) to apply quality filters and to trim the reads (parameters -min_len 180 -min_qual_mean 25 -ns_max_n 5 -trim_tail_right 15 -trim_tail_left 15). SortMeRNA v. 2.0 (60) was used to separate sequence reads into SSU rRNA, LSU rRNA, and putative mRNA reads. For more details and results of the initial data processing steps, see Table S3. All computations were performed using the CUBE computational resources, University of Vienna (Austria), or were run on the high-performance-computing (HPC) resource STALLO at the University of Tromsø (Norway).

Copyright and License information:  ©2018 Söllinger et al.
This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International license.This content is distributed under the terms of the Creative Commons Attribution 4.0 International license.This content is distributed under the terms of the Creative Commons Attribution 4.0 International license.This content is distributed under the terms of the Creative Commons Attribution 4.0 International license.This content is distributed under the terms of the Creative Commons Attribution 4.0 International license.This content is distributed under the terms of the Creative Commons Attribution 4.0 International license.This content is distributed under the terms of the Creative Commons Attribution 4.0 International license.This content is distributed under the terms of the Creative Commons Attribution 4.0 International license.This content is distributed under the terms of the Creative Commons Attribution 4.0 International license.This content is distributed under the terms of the Creative Commons Attribution 4.0 International license.This content is distributed under the terms of the Creative Commons Attribution 4.0 International license.

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