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    "text": "University of Missouri Expected Graduation: 08/2024  M.S. in Plant, Insect, and Microbial Sciences GPA: 3.92/4.00\nUniversity of Minnesota Graduated: 05/2017  B.S. in Environmental Sciences, Policy, and Management GPA: 3.40/4.00"
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    "text": "University of Missouri Expected Graduation: 08/2024  M.S. in Plant, Insect, and Microbial Sciences GPA: 3.92/4.00\nUniversity of Minnesota Graduated: 05/2017  B.S. in Environmental Sciences, Policy, and Management GPA: 3.40/4.00"
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    "text": "Relevant Experience\nGraduate Research Assistant 08/2022 - Present  Universty of Missouri - USDA: ARS Columbia, MO  Thesis Topics: quantitative genetics of soybean, seed composition traits, genome-wide association study, nested association population \n\nStudy applied quantitative genetics, gene discovery, and germplasm development of seed composition traits in soybean (Glycine max).\nPartake in multi-location field trails; select progeny for advancement, clean and package seed, mechanical planting, and manual harvesting to obtain high-quality data for statistical analysis and population advancement.\nPerform statistical analysis using various software including R, Excel, JMP, SAS and more to interpret results for research and/or publication.\nIsolate high-quality DNA from leaf tissue and seed samples for subsequent genotyping and analysis of genetic architecture.\nTrain and oversee undergraduate students so that they may work independently to package seed and collect phenotypic measurements via Near-Infrared Spectroscopy (NIRS).\n\n Independent Contractor 01/2023- Present Missouri Soybean Association Columbia, MO\n\nProvided subject matter expertise to Missouri Soybean Association to assist with the evaluation of the QSorter Explorer, a high-throughput phenotyping instrument equipped with a 2D/3D camera and NIRS.\nDetermined the accuracy of several calibrations available via the QSorter Explorer by designing experiments, sourcing materials, and analyzing data.\nProduced written reports, including accuracy statements, to be used in advertisement materials provided to prospective clients. \n\nGraduate Teaching Assistant 09/2023 – 12/2023  University of Missouri - Introduction to Plant Breeding Columbia, MO \n\nCollaborated seamlessly with co-teaching assistant to create slides, teach lectures, and grade coursework, providing students with consistent and prompt feedback.\nTaught lectures as needed on relevant topics such as polyploidy, designing a plant breeding program, germplasm collections, as well as biotic and abiotic stressors.\nDeveloped slides to complement the course textbook and promoted student understanding by presenting information to cater to a variety of learning styles.\n\n Ornamental Horticulturalist 05/2020 – 06/2022  Countryside Gardens LLC Delano, MN \n\nActively participated in maintaining a large ornamental plant breeding operation by dividing bare-root stock, taking inventory, maintaining field manifests, phenotyping, maintaining website images and descriptions, posting to social media, and making recommendations for seedling stock selection.\nCatered to individual needs of over 50 private clients by providing highly detailed and skilled gardening services.\nSkilled in greenhouse work, consistently maintained hundreds of healthy and vigorous plants under greenhouse conditions through precise watering, pruning, fertilizing, and pest management, maintaining their value as an asset to the company.\nAudited chemical and hazardous items on the worksite, reviewed safety data sheets (SDS), and ensured all materials were in appropriate secondary containment.\n\n Scientist 2 08/2017 – 04/2020  Student Laboratory Technician 09/2014 - 08/2017  University of Minnesota Veterinary Diagnostic Lab - Molecular Diagnostics St. Paul, MN \n\nWrote and reviewed standard operating procedures (SOPs) for technical, multi-step molecular laboratory procedures to maintain integrity of laboratory procedures across all personnel.\nMaintained quality control records of all assays performed in the laboratory to ensure assays were falling within acceptable range, ensuring continued certification and funding of the laboratory.\nDeveloped and validated clinical assays and workflows to improve service while conserving resources, resulting in saving tens of thousands of dollars.\nPerformed ongoing evaluation of workplace procedures, documents, and results. Documented all non-conforming incidents found during review.\nProvided accurate and timely clinical testing services to clients by reporting results in LIMS.\n\n Undergraduate Teaching Assistant 09/2016 – 05/2017  University of Minnesota - Introduction to Soil Science St. Paul, MN \n\nEducated students on topics pertaining to soil science in a laboratory setting, explored foundational concepts using applied experiments.\nCollected and utilized student feedback to improve existing coursework by editing laboratory exercises and creating modern graphics, resulting in improved student engagement.\n\n Undergraduate Research Assistant 08/2015 – 09/2015  University of Minnesota - Dept. Forest Resources St. Paul, MN \n\nSurveyed vegetative communities of 20 unique sites located at the SPRUCE (Spruce and Peatland Response Under Changing Environments) experimental research station, to determine impact of temperature and carbon dioxide on Northern peatland plant communities.\nCollected and analyzed data using Microsoft Excel to identify meaningful patterns and relationships between climatic conditions and ecosystem composition."
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    "text": "Professional Development & Community Outreach\nMentoring with Mizzou 01/2023-Present University of Missouri - Office of the Provost Columbia, MO\n\nParticipating in research-based, culturally informed mentorship training to improve my capacity and tools for mentoring young colleagues or student workers.\nCurriculum will address equity and inclusion, ethics, work-life balance, communication skills, and promote independence. \n\nGraduate Student Association Committee Member 01/2023-12/2023 University of Missouri \n\nAssisted in fostering community among plant science graduate students by hosting bi-annual dinners and creating comprehensive resources for students. \n\nHiring Committee Graduate Student Representative 10/2022-04/2023  University of Missouri \n\nAssisted in filling critical position at the Fischer Delta Research Education and Extension Center by reviewing applications, interviewing finalists, and providing recommendations to the division of plant sciences. \n\nVolunteer 03/2023  Columbia Young Scientists Expo\n\nJudged school-aged students poster presentation for science fair. \n\nVolunteer 03/2023-06/2023  Cedar Creek Therapeutic Riding Center\n\nContributed to a safe, healing environment by handling horses and interacting with clients."
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    "section": "Publications, Presentations & Conferences",
    "text": "Publications, Presentations & Conferences\nSoybean Breeders Workship; St. Louis, MO Winter 2023"
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    "text": "Honors and Awards\nDivision of Plant Sciences Graduate Student Travel Grant: $500 03/2023"
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    "text": "Welcome to my personal collection of code!\nAs I’ve started to lean into R, I’ve come to collect a series of files containing code scattered across my laptop. I wanted to create this page so I could have an evergreen collection of my work, available to me or anyone else looking for some accessible code.\n\nMaking Figures Accessible\nAccessibility is important in any scientific figure, but not always considered. Please consider the various ways to make your figures more accessible.\n\nColor-Blind Friendly\nMake your figure color-blind friendly by using R’s Color Brewer color pallet.\n\n\n\n\nMaking Figures\nI have found CMplotand ggplot2to be very useful programs for creating figures, and you’ll notice how I lean into these programs. CMplot is great for making both rectangular and ciruclar Manhattan plots, as well as QQ plots. ggplot2 is incredibly robust and has seemingly endless ways to customize each figure, allowing you to create diverse figures that fit together seamlessly.\n\nDensity Plots\n\n\n\nAn example of a density plot created using the code below via ggplot2.\n\n\n##install packages\ninstall.packages(\"tidyverse\")\ninstall.packages(\"ggplot2\")\n\n##load libraries\nlibrary(ggplot2)\nlibrary(tidyverse)\n\n##set working directory\n\n##read in data file\ndata<-read.csv(\"data file.csv\", header=TRUE)\n\n##Create density plot\nbasicplot<-ggplot(data, aes(x=xvariable, fill=yvariable)) +geom_density(alpha=0.6)\n\n##Set your Aesthetics\nbasicplot+theme_minimal()+labs(title=\"Title\") +scale_fill_discrete(name=\"legend name\") +theme(text = element_text(size=22)) +scale_fill_brewer(palette = \"GnBu\")\n\n\nBoxplots\n\n\n\nAn example of a boxplot created using the code below via ggplot2.\n\n\n##install packages\ninstall.packages(\"ggprism\")\ninstall.packages(\"patchwork\")\ninstall.packages(\"magrittr\")\ninstall.packages(\"tidyverse\")\ninstall.packages(\"ggplot2\")\ninstall.packages(\"extrafont\")\n\n##load libraries\nlibrary(ggplot2)\nlibrary(tidyverse)\nlibrary(viridis)\nlibrary(magrittr)\nlibrary(ggprism)\nlibrary(patchwork)\nlibrary(ggsignif)\nlibrary(extrafont)\nloadfonts(device=\"win\")\n\n##set working directory\n\n##read in data file and set variables\ndata<-read.csv(\"Inputfile.csv\", header=TRUE)\nXVAR<-data$varaible_A\nYVAR<-data$varaible_B  \nxaxis<-\"x-axis name-variable_A\"\nyaxis<-\"y-axis name-variable_B\"\n\n##calculate median value for later statistics\nmed<-aggregate(XVAR ~ YVAR, data, median)\n\n##create a boxplot\nbasic_plot<-ggplot(data, aes(x=XVAR, y=YVAR, color=YVAR))+geom_boxplot(aes(color=YVAR))+geom_jitter(aes(color=YVAR))+stat_boxplot(mapping=NULL, data=NULL, geom=\"errorbar\", width=0.3)+geom_signif(comparisons=list(c(\"C\", \"T\")), map_signif_level = TRUE, textsize = 12, family = \"TT Times New Roman\", color=\"black\")\n\n\n##perform statistics on the boxplot\nstat_boxplot<-basic_plot+geom_text(data=med, aes(label=XVAR), color=\"black\", size=5 +0.08, vjust=0, family=\"Times New Roman\")\n\n##adjust the limits of the x-axis\nstat_boxplot+xlim(0.0,0.5)\n\n##customize the boxplot with your chosen aestethics \nZZZ<-ZZ+theme_minimal(base_size = 12, base_family = \"TT Times New Roman\")+coord_flip()+labs(x=\"xaxis\", y=\"yaxis\")+scale_color_discrete(\"Allele\")+theme(axis.text.x=element_text(color = \"black\"))+theme(axis.text.y = element_text(color=\"black\"))\n\n\nManhattan Plots\n\n\n\nAn example of a manhattan plot made with the code below via CMplot.\n\n\n##install packages\ninstall.packages(\"CMplot\")\n\n##load libraries\nlibrary(\"CMplot\")\n\n##set working directory\n\n##read in input file\nY=read.csv(\"inputfile.csv\", header=TRUE)\n\n##create manhattan plot with the significance threshold, and file type of your choice\nCMplot(Y, plot.type=\"m\",threshold=3e-4), file=\"tiff\", file.name=\"filename\", main=\"title\")\n\n##customize the y-axis limits\nylim=c(0,14)\n\n\nQQ Plots\n\n\n\nAn example of a QQ plot made with the code below, via CMplot.\n\n\n##install packages\ninstall.packages(\"CMplot\")\n\n##load libraries\nlibrary(\"CMplot\")\n\n##set working directory\n\n##read in input file\nY=read.csv(\"inputfile.csv\", header=TRUE)\n\n##make QQ plot, with threshold, file type, and color of your choice\nCMplot(Y, plot.type=\"q\",threshold=3e-4, file=\"extension_type\", file.name = \"file name\", main = \"title\", dpi=300, col=c(\"goldenrod\"))\n\n##customize the y-axis limits\nylim=c(0,14)\n\n\n\nGWAS Analysis\nThere are a number of packages available for GWAS analysis, but I have become fond of the GAPIT package. I’ve used the BLINK method in my own research as it is currently the most powerful computationally and has a lower risk of false positives than other models. You will find the code I used for GWAS analysis via BLINK below.\n##install packages\ninstall.packages(\"gplots\")\ndevtools::install_github(\"SFUStatgen/LDheatmap\")\ninstall.packages(\"genetics\")\ninstall.packages(\"EMMREML\") \ninstall.packages(\"scatterplot3d\")\ninstall.packages(\"bigmemory\")\ninstall.packages(\"biganalytics\")\n\n##load libraries\nlibrary(gplots) \nlibrary(LDheatmap)\nlibrary(genetics)\nlibrary(EMMREML)\nlibrary(compiler)\nlibrary(scatterplot3d)\nlibrary(bigmemory)\nlibrary(biganalytics)\nsource(\"http://zzlab.net/GAPIT/gapit_functions.txt\")\nsource(\"http://zzlab.net/GAPIT/emma.txt\")\nsource(\"http://zzlab.net/FarmCPU/FarmCPU_functions.txt\")\nsource(\"http://zzlab.net/GAPIT/GAPIT.library.R\")\nsource(\"http://zzlab.net/GAPIT/gapit_functions.txt\")\n\n##set working directory\n\n##read in input file (tab delim.) of genotypic data\nmyG <- read.delim(file.choose(), sep=\"\\t\", header=FALSE) \n\n##make genotypic data numeric\nmyGAPIT <- GAPIT(G=myG, output.numerical=TRUE)\n\n##read in input file (.csv) of phenotypic data\n##ensure the accessions within both phenotypic and genotypic data files are in the same order\nmyY <- read.csv(file.choose(), head = TRUE)\n\n##Perform GWAS analysis\nmyGAPIT_MLM <- GAPIT( Y=myY,G=myG,PCA.total=3,model=c(\"Blink\"),Multiple_analysis=TRUE)"
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    "title": "Hello There!",
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    "text": "My name is Sam Radermacher, and I am a quantitative geneticist specializing in seed composition traits in soybean. The best parts of my work revolve around data analytics and interpretation of results. I love translating big data sets into tangible and meaningful information.Feel free to browse my website, check out my recent projects, or borrow code for your next project."
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    "title": "Hello There!",
    "section": "Education",
    "text": "Education\nUniversity of Missouri Expected Graduation: 08/2024  M.S. in Plant, Insect, and Microbial Sciences\nUniversity of Minnesota Graduated: 05/2017  B.S. in Environmental Sciences, Policy, and Management"
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    "title": "Hello There!",
    "section": "Experience",
    "text": "Experience\nGraduate Research Assistant  University of Missouri\nIndependent Contractor  Missouri Soybean Association"
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    "text": "In early 2020 I made a career move from working in a clinical molecular biology lab to working as a gardener. From the outside, it might have appeared to be a surprising move, but really I felt it was moving me closer to my passion and to the work I began in my undergraduate studies. By 2021 I was so enamored with all I was learning, that I decided to apply to graduate school and pursue plant science as a career.\nIt really all started for me in this field of peonies. This field contained well over 100 varieties of herbaceous peonies that descended from the once world’s-largest peony supplier, the Brand Peony Farm est. 1868. I walked the fields and learned the names and nuance of every variety I could. I started to see so much variation in the color and structure of the foliage and the petals, and was able to pick up on desirable characteristics.\n\nEach fall I would help to dig the plants from the field, dissect them with a sharp blade, and ship them all around the country to fellow peony collectors. I saw the difference in root structure and growth rates for different varieties, and of course I squirreled away any roots that were destined for the compost for safe-keeping.\n\nWhile my professional work focuses on soybean, I still maintain a modest collection of 20 varieties that traveled to Missouri with me. I spend my springs planning crosses and nursing my collection to continue their growth over the years. Peonies are known to live up to 100 years and thrive in neglect, so I believe my efforts in their early stages of development will outlast me and be left for future ornamental breeders to utilize."
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    "text": "In early 2020 I made a career move from working in a clinical molecular biology lab to working as a gardener. From the outside, it might have appeared to be a surprising move, but really I felt it was moving me closer to my passion and to the work I began in my undergraduate studies. By 2021 I was so enamored with all I was learning, that I decided to apply to graduate school and pursue plant science as a career.\nIt really all started for me in this field of peonies. This field contained well over 100 varieties of herbaceous peonies that descended from the once world’s-largest peony supplier, the Brand Peony Farm est. 1868. I walked the fields and learned the names and nuance of every variety I could. I started to see so much variation in the color and structure of the foliage and the petals, and was able to pick up on desirable characteristics.\n\nEach fall I would help to dig the plants from the field, dissect them with a sharp blade, and ship them all around the country to fellow peony collectors. I saw the difference in root structure and growth rates for different varieties, and of course I squirreled away any roots that were destined for the compost for safe-keeping.\n\nWhile my professional work focuses on soybean, I still maintain a modest collection of 20 varieties that traveled to Missouri with me. I spend my springs planning crosses and nursing my collection to continue their growth over the years. Peonies are known to live up to 100 years and thrive in neglect, so I believe my efforts in their early stages of development will outlast me and be left for future ornamental breeders to utilize."
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