cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.14746179.v5
title: Data required for Salix

description: <b>Files of reference genome data used in analysis</b><br>filename: Ssuchowensis.V4.1.zipdescriptions: original data downloaded from ftp://plantgenie.org/Data/PopGenIE/Salix-suchowensis, version 4.1, the reference genome is given as "Ssuchowensis_4.fa" in FASTA format<br><b>Files of alignments and scripts used to produce ontogenetic tree in Figure 4.</b>filename: Figure4 Data.zipdescriptions: <b>Figure_4.alignments.fas</b> - file contains alignments used to construct the ontogenetic tree, fasta format; <b>Figure_4.snv_mut.txt</b> - SNV mutations used to generate the alignments; <b>Figure_4.sample_panel.list</b> - sample list to be shown in the ontogenetic tree; <b>mutation2cns.pl </b> - a custom script to generate the alignments by concatenating the SNV mutations for each sample (use reference allele for non-mutated samples), usage: "perl mutation2cns.pl --input Figure_4.snv_mut.txt -s Figure_4.sample_panel.list &gt; Figure_4.alignments.fas"; <b>MyPerl</b> - custom PERL module accompany "mutation2cns.pl", need to be placed in the same folder with script or in the default PERL library path<br><b>Regional BAM files contain mapped reads of 17 BR-m mutation sites</b>filename: BAM.zipdescriptions: The 55 regional BAM files were extracted from original BAM files to only include mapping results covering the 17 BR-M mutation sites (including 10kb flanking regions). Each file was generated using codes below (the "target-region.bed" is in the format: "chrom mut_pos-10001 mut_position+10000") samtools view BAMFILE -b -L <b>target-region.bed</b> &gt;OUTPUT samtools index BAMFILE<br><b>IGV snapshots of all 17 BR-m mutations</b>filename: IGV snapshot.zipdescriptions: Screen snapshot of 17 BR-m mutation sites (+/- 55bp) from IGV (version 2.3.90, https://software.broadinstitute.org/software/igv/), in png format. All 55 samples for each mutation are shown in a single figure, with each panel presents mapping results of one sample.<br><b>Sanger sequencing data for BR-m mutation sites' verification</b><b><br></b><b>#Monoclone</b>Sanger sequencing data of monoclonal PCR product for 8 BR-m mutations sites in ab1 type.<br><br><b>#PCR</b>Sanger sequencing data of 12 BR-m mutations sites in ab1 type.<br><b>Other related files</b><br><b>Corresponded_sample_IDs.xlsx</b> - Excel file contains the corresponded sample id used in the BAM file (a short sample ID with only cutting ID) and in the paper (a full sample ID with both branch ID and cutting ID)<br><b>BR-m_mutations.Sample_readcounts.xlsx</b> - Excel file contains the detailed readcounts (number of reads for reference [i.e., ancestral ] allele and for mutation allele) of 17 BR-m mutations across 54 samples (except one poorly sequenced root sample)<br><b>Figure S4.BR-m.PCR.pdf</b>Fig. S4 Sanger chromatogram traces of assessed BR-m mutations.<b>Figure S5.BR-m.PCR_clone.pdf</b><br>Fig. S5 Sanger sequencing results of monoclonal PCR products for BR-m mutations.<br>
DOI: 10.6084/m9.figshare.14746179.v4
title: Data required for Salix

description: <b>Files of reference genome data used in analysis</b><br>filename: Ssuchowensis.V4.1.zipdescriptions: original data downloaded from ftp://plantgenie.org/Data/PopGenIE/Salix-suchowensis, version 4.1, the reference genome is given as "Ssuchowensis_4.fa" in FASTA format<br><b>Files of alignments and scripts used to produce ontogenetic tree in Figure 4.</b>filename: Figure4 Data.zipdescriptions: <b>Figure_4.alignments.fas</b> - file contains alignments used to construct the ontogenetic tree, fasta format; <b>Figure_4.snv_mut.txt</b> - SNV mutations used to generate the alignments; <b>Figure_4.sample_panel.list</b> - sample list to be shown in the ontogenetic tree; <b>mutation2cns.pl </b> - a custom script to generate the alignments by concatenating the SNV mutations for each sample (use reference allele for non-mutated samples), usage: "perl mutation2cns.pl --input Figure_4.snv_mut.txt -s Figure_4.sample_panel.list &gt; Figure_4.alignments.fas"; <b>MyPerl</b> - custom PERL module accompany "mutation2cns.pl", need to be placed in the same folder with script or in the default PERL library path<br><b>Regional BAM files contain mapped reads of 17 BR-m mutation sites</b>filename: BAM.zipdescriptions: The 55 regional BAM files were extracted from original BAM files to only include mapping results covering the 17 BR-M mutation sites (including 10kb flanking regions). Each file was generated using codes below (the "target-region.bed" is in the format: "chrom mut_pos-10001 mut_position+10000") samtools view BAMFILE -b -L <b>target-region.bed</b> &gt;OUTPUT samtools index BAMFILE<br><b>IGV snapshots of all 17 BR-m mutations</b>filename: IGV snapshot.zipdescriptions: Screen snapshot of 17 BR-m mutation sites (+/- 55bp) from IGV (version 2.3.90, https://software.broadinstitute.org/software/igv/), in png format. All 55 samples for each mutation are shown in a single figure, with each panel presents mapping results of one sample.<br><b>Sanger sequencing data for BR-m mutation sites' verification</b><b><br></b><b>#Monoclone</b>Sanger sequencing data of monoclonal PCR product for 8 BR-m mutations sites in ab1 type.<br><br><b>#PCR</b>Sanger sequencing data of 12 BR-m mutations sites in ab1 type.<br><b>Other related files</b><br><b>Corresponded_sample_IDs.xlsx</b> - Excel file contains the corresponded sample id used in the BAM file (a short sample ID with only cutting ID) and in the paper (a full sample ID with both branch ID and cutting ID)<br><b>BR-m_mutations.Sample_readcounts.xlsx</b> - Excel file contains the detailed readcounts (number of reads for reference [i.e., ancestral ] allele and for mutation allele) of 17 BR-m mutations across 54 samples (except one poorly sequenced root sample)<br><b>Figure S4.BR-m.PCR.rev.pdf</b>Pdf version for Figure S4 in paper<b>Figure S5.BR-m.PCR_clone.rev.pdf</b><br>Pdf version for Figure S5 in paper
DOI: 10.6084/m9.figshare.16632832
title: data.xlsx

description: cut waveforms
DOI: 10.6084/m9.figshare.16632832.v1
title: data.xlsx

description: cut waveforms
DOI: 10.6084/m9.figshare.12472034
title: Crowd control: reducing individual estimation bias by sharing biased social information

description: Column 1: experimental sessionColumn 2: participant IDColumn 3: participant's sexColumn 4: participant's age<br>Column 5: question ID<br>Column 6: old (used in previous studies) or new question<br>Column 7: question itself<br>Column 8: correct answer to the questionColumn 9: treatment<br>Column 10: number of estimates shared<br>Column 11: personal estimateColumn 12: second estimateColumns 13 to 23: estimates received as social information<br>Column 24: average social information MColumn 25: distance D = M - XpColumn 26: sensitivity to social influence SColumn 27: dispersion of the social information
DOI: 10.6084/m9.figshare.12472034.v2
title: Crowd control: reducing individual estimation bias by sharing biased social information

description: Column 1: experimental sessionColumn 2: participant IDColumn 3: participant's sexColumn 4: participant's age<br>Column 5: question ID<br>Column 6: old (used in previous studies) or new question<br>Column 7: question itself<br>Column 8: correct answer to the questionColumn 9: treatment<br>Column 10: number of estimates shared<br>Column 11: personal estimateColumn 12: second estimateColumns 13 to 23: estimates received as social information<br>Column 24: average social information MColumn 25: distance D = M - XpColumn 26: sensitivity to social influence SColumn 27: dispersion of the social information
DOI: 10.6084/m9.figshare.12472034.v1
title: Debiasing the crowd: how to select social information for improving collective judgments?

description: Column 1: experimental sessionColumn 2: question ID<br>Column 3: question itself<br>Column 4: correct answer to the question<br>Column 5: old (used in previous studies) or new question<br>Column 6: number of estimates shared<br>Column 7: treatment<br>Column 8: participant ID<br>Column 9: personal estimate<br>Column 10: answering time<br>Column 11: second estimate<br>Column 12: estimation time<br>Columns 13 to 23: estimates shared<br>
DOI: 10.15473/1819888
title: Reference Model 1 Full Scale Geometry (RM1: Tidal Current Turbine)

description: Contains the Reference Model 1 (RM1) full scale geometry files of the Tidal Current Turbine, developed by the Reference Model Project (RMP). These full scale geometry files are saved as SolidWorks assembly, X_T, IGS, and STEP files, and require a CAD program to view. This data was generated upon completion of the project on September 30, 2014. The Reference Model Project (RMP), sponsored by the U.S. Department of Energy (DOE), was a partnered effort to develop open-source MHK point designs as reference models (RMs) to benchmark MHK technology performance and costs, and an open-source methodology for design and analysis of MHK technologies, including models for estimating their capital costs, operational costs, and levelized costs of energy. The point designs also served as open-source test articles for university researchers and commercial technology developers. The RMP project team, led by Sandia National Laboratories (SNL), included a partnership between DOE, three national laboratories, including the National Renewable Energy Laboratory (NREL), Pacific Northwest National Laboratory (PNNL), and Oak Ridge National Laboratory (ORNL), the Applied Research Laboratory of Penn State University, and Re Vision Consulting. Reference Model 1 (RM1) is a dual variable-speed variable-pitch (VSVP) axial-flow tidal turbine device, designed for the Tacoma Narrows tidal current energy resource site in Puget Sound, Washington. RM1 comprises a monopile foundation and a crossarm assembly to mount the two rotors. The cross-arm assembly is nearly neutrally buoyant so the attached rotors can be recovered and redeployed with a minimal amount of lifting crane capacity; therefore, the design minimizes the handling requirements during deployment and recovery, which reduces overall cost in all O&M activities including access to the power conversion chain (PCC).
DOI: 10.15473/1819889
title: Reference Model 2 Full Scale Geometry (RM2: River Current Turbine)

description: Contains the Reference Model 2 (RM2) full scale geometry files of the River Current Turbine, developed by the Reference Model Project (RMP). These full scale geometry files are saved as SolidWorks assembly, IGS, X_T, and STEP files, and require a CAD program to view. This data was generated upon completion of the project on September 30, 2014. The Reference Model Project (RMP), sponsored by the U.S. Department of Energy (DOE), was a partnered effort to develop open-source MHK point designs as reference models (RMs) to benchmark MHK technology performance and costs, and an open-source methodology for design and analysis of MHK technologies, including models for estimating their capital costs, operational costs, and levelized costs of energy. The point designs also served as open-source test articles for university researchers and commercial technology developers. The RMP project team, led by Sandia National Laboratories (SNL), included a partnership between DOE, three national laboratories, including the National Renewable Energy Laboratory (NREL), Pacific Northwest National Laboratory (PNNL), and Oak Ridge National Laboratory (ORNL), the Applied Research Laboratory of Penn State University, and Re Vision Consulting. Reference Model 2 (RM2) is a variable speed dual-rotor cross-flow river turbine that is deployed at the waters surface. It was designed for deployment at a reference site modeled after a reach in the Mississippi River near Baton Rouge, Louisiana. The rotors are anchored to a two-pontoon vessel platform. Surface deployment of the turbine minimizes the handling requirements during deployment and recovery and reduces overall costs for all O&M activities, including allowing for easy access to the power conversion chain (PCC). The design (two rotors per platform) also reduces the environmental footprint and associated environmental compliance costs.
DOI: 10.15473/1819890
title: Reference Model 3 Full Scale Geometry (RM3: Wave Point Absorber)

description: Contains the Reference Model 3 (RM3) full scale geometry files of the Wave Point Absorber, developed by the Reference Model Project (RMP). These full scale geometry files are saved as SolidWorks assembly, IGS, and STEP files, and require a CAD program to view. This data was generated upon completion of the project on September 30, 2014. The Reference Model Project (RMP), sponsored by the U.S. Department of Energy (DOE), was a partnered effort to develop open-source MHK point designs as reference models (RMs) to benchmark MHK technology performance and costs, and an open-source methodology for design and analysis of MHK technologies, including models for estimating their capital costs, operational costs, and levelized costs of energy. The point designs also served as open-source test articles for university researchers and commercial technology developers. The RMP project team, led by Sandia National Laboratories (SNL), included a partnership between DOE, three national laboratories, including the National Renewable Energy Laboratory (NREL), Pacific Northwest National Laboratory (PNNL), and Oak Ridge National Laboratory (ORNL), the Applied Research Laboratory of Penn State University, and Re Vision Consulting. Reference Model 3 (RM3) is a wave point absorber, also referred to as a wave power buoy, that was designed for a reference site located off the shore of Eureka in Humboldt County, California. The design of the device consists of a surface float that translates (oscillates) with wave motion relative to a vertical column spar buoy, which connects to a subsurface reaction plate. This two-body point absorber converts wave energy into electrical power predominately from the device's heave oscillation induced by incident waves; the float is designed to oscillate up and down the vertical shaft up to 4 m. The bottom of the reaction plate is about 35 m below the water surface. The device is targeted for deployment in water depths of 40 m to 100 m. The point absorber is also connected to a mooring system to keep the floating device in position.
DOI: 10.15473/1819891
title: Reference Model 6 Cost Breakdown (RM6: Oscillating Water Column)

description: Contains the Reference Model 6 (RM6) spreadsheets with the cost breakdown structure (CBS) for the levelized cost of energy (LCOE) calculations for a single RM6 device and multiple unit arrays. These spreadsheets are contained within an XLSX file and a spreadsheet editor such as Microsoft Excel is needed to open the file. This data was generated upon completion of the project on September 30, 2014. The Reference Model Project (RMP), sponsored by the U.S. Department of Energy (DOE), was a partnered effort to develop open-source MHK point designs as reference models (RMs) to benchmark MHK technology performance and costs, and an open-source methodology for design and analysis of MHK technologies, including models for estimating their capital costs, operational costs, and levelized costs of energy. The point designs also served as open-source test articles for university researchers and commercial technology developers. The RMP project team, led by Sandia National Laboratories (SNL), included a partnership between DOE, three national laboratories, including the National Renewable Energy Laboratory (NREL), Pacific Northwest National Laboratory (PNNL), and Oak Ridge National Laboratory (ORNL), the Applied Research Laboratory of Penn State University, and Re Vision Consulting. Reference Model 6 (RM6) is a Backward Bent Duct Buoy (BBDB), which is a type of oscillating water column wave energy converter. First proposed by Masuda, the BBDB design is a floating Oscillating Water Column (OWC) device that consists of an air chamber, an L-shaped duct, bow and stern buoyancy modules, and a power take-off (PTO) composed of a Wells air turbine and a generator. This L- shaped device opens to the ocean downstream from the wave propagation direction. Power is produced by the motion of the wave, which causes the ambient pressure in the air chamber to vary thereby forcing air to flow through the Wells turbine. The reference wave energy resource for RM6 was developed from site information collected near Eureka, in Humboldt County, California.
DOI: 10.15473/1819892
title: Reference Model 5 Cost Breakdown (RM5: Oscillating Surge Flap)

description: Contains the Reference Model 5 (RM5) spreadsheets with the cost breakdown structure (CBS) for the levelized cost of energy (LCOE) calculations for a single RM5 device and multiple unit arrays. These spreadsheets are contained within an XLSX file and a spreadsheet editor such as Microsoft Excel is needed to open the file. This data was generated upon completion of the project on September 30, 2014. The Reference Model Project (RMP), sponsored by the U.S. Department of Energy (DOE), was a partnered effort to develop open-source MHK point designs as reference models (RMs) to benchmark MHK technology performance and costs, and an open-source methodology for design and analysis of MHK technologies, including models for estimating their capital costs, operational costs, and levelized costs of energy. The point designs also served as open-source test articles for university researchers and commercial technology developers. The RMP project team, led by Sandia National Laboratories (SNL), included a partnership between DOE, three national laboratories, including the National Renewable Energy Laboratory (NREL), Pacific Northwest National Laboratory (PNNL), and Oak Ridge National Laboratory (ORNL), the Applied Research Laboratory of Penn State University, and Re Vision Consulting. Reference Model 5 (RM5) is a type of floating, oscillating surge wave energy converter (OSWEC) that utilizes the surge motion of waves to generate electrical power. The reference wave energy resource for RM5 was measurement data from a National Data Buoy Center (NDBC) buoy near Eureka, in Humboldt County, California. The flap was designed to rotate against the supporting frame to convert wave energy into electrical power from the relative rotational motion induced by incoming waves. The RM5 design is rated at 360 kilowatts (kW), uses a flap of 25 m in width and 19 m in height (16 m in draft), and the distance from the top of the water surface piercing flap to the mean water surface (freeboard) is 1.5 m. The flap is connected to a shaft with a 3-m diameter that rotates against the supporting frame. The supporting frame is assumed to have an outer diameter of 2 m, and the total length of the device structure is 45 m. The RM5 OSWEC was designed for deep-water deployment, at depths between 50 m and 100 m, and was tension-moored to the seabed.
DOI: 10.15473/1819893
title: Reference Model 4 Cost Breakdown (RM4: Ocean Current Turbine)

description: Contains the Reference Model 4 (RM4) spreadsheets with the cost breakdown structure (CBS) for the levelized cost of energy (LCOE) calculations for a single RM4 device and multiple unit arrays. These spreadsheets are contained within an XLSX file and a spreadsheet editor such as Microsoft Excel is needed to open the file. This data was generated upon completion of the project on September 30, 2014. The Reference Model Project (RMP), sponsored by the U.S. Department of Energy (DOE), was a partnered effort to develop open-source MHK point designs as reference models (RMs) to benchmark MHK technology performance and costs, and an open-source methodology for design and analysis of MHK technologies, including models for estimating their capital costs, operational costs, and levelized costs of energy. The point designs also served as open-source test articles for university researchers and commercial technology developers. The RMP project team, led by Sandia National Laboratories (SNL), included a partnership between DOE, three national laboratories, including the National Renewable Energy Laboratory (NREL), Pacific Northwest National Laboratory (PNNL), and Oak Ridge National Laboratory (ORNL), the Applied Research Laboratory of Penn State University, and Re Vision Consulting. Reference Model 4 (RM4) is a flying-wing ocean current turbine concept intended for deployment in the Gulf Stream off the southeast coast of Florida. The RM4 device has four rotors, with a rotorless center nacelle housing the power electronics, attached on a straight wing 120 m long. The device is designed to be submerged ~50 m below the surface and is moored to the seabed. The RM4 uses buoyancy within the wing and the five nacelles to maintain its position in the water column. Each rotor has a diameter of 33 m and has a 1-MW power rating, yielding a total device rated power of 4 MW. The rotors on the left and right side of the wing rotate in opposite directions in order to balance the torque applied to the device. The rotorless center nacelle housing the power electronics serves to condition the power generated by the rotors before it is delivered to the grid.
DOI: 10.15473/1819894
title: Reference Model 3 Cost Breakdown (RM3: Wave Point Absorber)

description: Contains the Reference Model 3 (RM3) spreadsheets with the cost breakdown structure (CBS) for the levelized cost of energy (LCOE) calculations for a single RM3 device and multiple unit arrays. These spreadsheets are contained within an XLSX file and a spreadsheet editor such as Microsoft Excel is needed to open the file. This data was generated upon completion of the project on September 30, 2014. The Reference Model Project (RMP), sponsored by the U.S. Department of Energy (DOE), was a partnered effort to develop open-source MHK point designs as reference models (RMs) to benchmark MHK technology performance and costs, and an open-source methodology for design and analysis of MHK technologies, including models for estimating their capital costs, operational costs, and levelized costs of energy. The point designs also served as open-source test articles for university researchers and commercial technology developers. The RMP project team, led by Sandia National Laboratories (SNL), included a partnership between DOE, three national laboratories, including the National Renewable Energy Laboratory (NREL), Pacific Northwest National Laboratory (PNNL), and Oak Ridge National Laboratory (ORNL), the Applied Research Laboratory of Penn State University, and Re Vision Consulting. Reference Model 3 (RM3) is a wave point absorber, also referred to as a wave power buoy, that was designed for a reference site located off the shore of Eureka in Humboldt County, California. The design of the device consists of a surface float that translates (oscillates) with wave motion relative to a vertical column spar buoy, which connects to a subsurface reaction plate. This two-body point absorber converts wave energy into electrical power predominately from the devices heave oscillation induced by incident waves; the float is designed to oscillate up and down the vertical shaft up to 4 m. The bottom of the reaction plate is about 35 m below the water surface. The device is targeted for deployment in water depths of 40 m to 100 m. The point absorber is also connected to a mooring system to keep the floating device in position.