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Raw sequence reads: PRJNA493727
Datasets usually provide raw data for analysis. This raw data often comes in spreadsheet form, but can be any collection of data, on which analysis can be performed.
posted on 27.11.2018by C. S. Stobie, Michael J. Cunningham, Carel J. Oosthuizen, Paulette Bloomer
This is a link out to the raw RAD data files for both Orange-Vaal
yellowfish libraries, batch 2 and batch 3. The files are given as
paired-end FastQ files, with _1 referring to Read 1 files and _2 Read 2
files. Read 1 files are associated with the enzyme NlaIII, whereas Read 2
files are the paired reads associated with MluCI. Sequence data was
generated by an Illumina HiSeq 2000 for batch 2, and an Illumina HiSeq 4000
for batch 3. The sequencing depth between libraries also differs. Some
initial filtering has been performed on these data files by the sequencing
company (Beijing Genomics Institute, Hong Kong), however they may require
additional filtering as discussed in the paper. FastQ files are in the
standard format, with all barcodes and adapters trimmed (apart from any
pollution due to overlap). Replicated samples are included in this set of
files - for batch 2 this is sample LaO05 which is split into replicates
LaO05-1 and LaO05-2 (6 files for each replicate instead of the standard 2).
In batch 3 the replicates are 018A3, 029K5, 047K5, and LkA06 where each
replicate pair is specified as either -A or -B (two files per replicate,
the same as the other unreplicated samples). Sample names match those given
in the Supporting Information - please refer to the Supporting Information
if you require further information relating to the specimens.