Title

Pteridium nuclear gene phylogeny

Description

Raw amplicon sequence data and raw reads of from GBS library. Also all code and analyses required to process raw data.

OCLC

1090815487

Document Type

Dataset

DCMI Type

Dataset

File Format

.fastq, .txt, .rmd, .html

Viewing Instructions

Data posted here includes: 1. markdown files detailing analyses of amplicon data (Pteridium_amplicon_pipeline.Rmd) 2. Raw amplicon sequence data as a compressed file of fastq reads (Pteridium_amplicon.zip) 3. Compressed folder of final clustered/filtered fasta sales fro amplicon sequencing:trim99_pandaseq_merged_reads.zip 4. Pteridium_GBS_Tutorial.html - pipeline for analysis of GBS data (also see https://github.com/sylviakinosian/Pteridium_GBS_Pipeline) 5. The raw data are in compressed fastq files that have been split for ease of data transfer. Files are xaa_Pter_GBS.fastq.gz though xan.etc. These need to be unzipped and concatenated as directed in the README file

Publication Date

2-28-2019

Funder

Mary Gunson Memorial Bequest

NSF, Graduate Research Fellowship

Publisher

Utah State University

Methodology

see publication for methodology

Scientfic Names

Pteridium

Language

eng

Disciplines

Botany | Plant Breeding and Genetics

License

Creative Commons License
This work is licensed under a Creative Commons Attribution 4.0 License.

Files

README.Pteridium_nuclear_genes.txt (1 kB)
MD5: 8240f71ea684e73a5b7a2e8c7b261826

Pteridium_amplicon_pipeline.Rmd (15 kB)
MD5: 298c9dbb151fe06877061937707fdc4a

Pteridium_amplicon.zip (2732637 kB)
MD5: 7502693b7f5cbcc49ec78f3b23133858

trim99_pandaseq_merged_reads.zip (1070 kB)
MD5: b3f258b07d1962888aa75a14f65feb9e

Pteridium_GBS_Tutorial.html (637 kB)
MD5:4111be68f31326d0601a0f734fbef81a

xaa_Pter_GBS.fastq.gz (1264539 kB)
MD5: 5692c9ce184a69977fdd4bdcf1741b63

xab_Pter_GBS.fastq.gz (1276087 kB)
MD5: 3771e169076a13c82b768e24cc745309

xac_Pter_GBS.fastq.gz (1279301 kB)
MD5: 9e279eaede5bae400914ed3525ee7e69

xad_Pter_GBS.fastq.gz (1273969 kB)
MD5: ade4d94fc903MD5: ade4d94fc9035e499aa818ae312574d25e499aa818ae312574d2

xae_Pter_GBS.fastq.gz (1273865 kB)
MD5: f709b80b9aaf0f63bd79dc05c2cf40b2

xaf_Pter_GBS.fastq.gz (1255972 kB)
MD5: fdb6e3bb2a670efafecbaad566f845c7

xag_Pter_GBS.fastq.gz (1266428 kB)
MD5: f892bf370ecd52b49ed89878961024f3

xah_Pter_GBS.fastq.gz (1259646 kB)
MD5: 82565513b3d17a9bbbb54255baafde16

xai_Pter_GBS.fastq.gz (1269228 kB)
MD5: 7f1970f572edc4590a58f72a94ad6bb2

xaj_Pter_GBS.fastq.gz (1028271 kB)
MD5: a199c6216e8efa9bee219cae2d057290

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