Timestamp	6/4/15 17:18
Publication/preprint has complementing code & data repositories that can be used to reproduce results	"10.7287/peerj.preprints.704
10.1101/012831 "
"Code repositories have detailed, plain-English README files describing the computational environment and dependencies (including version numbers) to facilitate independent reproduction"	"https://github.com/jheare/OluridaSurvey2014
https://github.com/che625/olson-ms-nb
https://github.com/sr320/eimd-sswd"
"Computational environment captured (ie. in a virtual machine image/dockerfile/vagrantfile, etc.) in one or more research compendia "	na
Primary software tools for research are open source 	"IPython
R
IGV
BSMAP
BLAST
Bedtools
"
Submit your code for review	"Question not that clear, https://github.com/jheare/OluridaSurvey2014/issues/12"
Perform code review for someone else	na
Have the substantive results of your publication reproduced by someone else using your code and data	Question not clear
Perform a reproducibility review for someone else	na
Analysis/scripts/code developed in one or more GitHub/BitBucket/GitLab or similar version-controlled open code repository	"https://github.com/jheare/OluridaSurvey2014
https://github.com/che625/olson-ms-nb
https://github.com/sr320/eimd-sswd"
Code has one or more tests	na - and not clear what this means
One or more code repository has an open license (eg. MIT/BSD/GPL2 etc.)	na
One or more code repository has a persistent URL (eg. DOI) to a specific release	"https://github.com/jheare/OluridaSurvey2014/releases/tag/v1.0
https://github.com/che625/olson-ms-nb/releases/tag/1.0"
One or more datasets in an institutional repository (not personal webpage)	none
One or more datasets in Figshare/Zenodo or domain specific open data repository that issues persistent URLs	"http://figshare.com/articles/Transcriptome_characterization_of_the_Olympia_oyster_and_pinto_abalone/156431
http://figshare.com/articles/QPX_Genome_Browser_Feature_Tracks/701214"
One or more sets of raw data are published as soon as generated	tough question - maybe edit
"One or more sets of raw data are in open formats (eg. CSV, txt, etc.) "	"maybe redundant?
https://github.com/jheare/OluridaSurvey2014/tree/master/data"
One or more Online Lab Notebooks	"http://onsnetwork.org/halfshell
http://figshare.com/articles/Lab_Notebook_2014/1273990"
One or more grant proposals & data management plans online & Open Access	"http://figshare.com/articles/DNA_methylation_as_a_mechanism_to_increase_adaptive_potential_in_invertebrates/97107
g
https://github.com/sr320/LabDocs/blob/master/DMPseq.md
https://github.com/sr320/LabDocs/blob/master/DataSharePlan.md"
"Preprint in arXiv, bioarXiv, PeerJ Preprints or similar"	"http://dx.doi.org/10.7287/peerj.preprints.704
http://dx.doi.org/10.1101/012831
http://figshare.com/articles/Genomic_resource_development_of_shellfish_of_conservation_concern/97205
http://figshare.com/articles/Elevated_pCO2_causes_developmental_delay_in_early_larval_Pacific_oysters,_Crassostrea_gigas/95828
https://peerj.com/preprints/388/"
What percentage of your publications from the last two years are Open Access?	(not ness easy) 67% 
Participation in open peer review via a Publons and/or PubPeer account or similar	https://publons.com/author/13038/steven-b-roberts#profile
Username	
Your name and current affiliation 	"Steven Roberts, University of Washington, School of Aquatic and Fishery Sciences"
An account at one or more web-based code-hosting service (eg. GitHub/BitBucket/GitLab or similar)