1/1
Supplemental Material for Hoffberg et al., 2018
dataset
posted on 2018-04-26, 20:34 authored by Sandra L. Hoffberg, Nicholas J. Troendle, Travis C. Glenn, Ousman Mahmud, Swarnali Louha, Domitille Chalopin, Jeffrey L. Bennetzen, Rodney MauricioFigure
S1: Comparison of the size distribution of library inserts in the Meraculous and
HiRise assemblies.
Figure S2: The frequency
of kmers at each kmer length.
Figure S3: The distribution of scaffold lengths in the HiRise assembly.
Figure S4: The cumulative percent of the
assembly for a given scaffold size in the Meraculous and HiRise
assemblies.
Table S1: A detailed
list of the number of copies and percent of the assembly of transposons and
repeatable elements.
File S1: Submission script for MAKER.
File S2: MAKER executable file (maker_exe.ctl).
File S3: Specifications for downstream filtering of BLAST and Exonerate alignments (maker_bopts.ctl).
File S4: Primary configuration of MAKER specific options (maker_opts.ctl).
File S5: Commands for training SNAP.
File S6: Submission script for BLAST comparing Gambusia affinis with related fish.
File S7: Submission script for BUSCO.
File S8: Submission script for predicting ncRNAs.
File S9: Illumina reads mapped to the reference in BAM format.
File S10: Sequence of tRNAs.
File S11: Structure of tRNAs.
File S12: rRNA, snRNA, snoRNA, and miRNA sequences.
