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R-Ladies Morelia Mexico blog post
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title: "Endophytes, Oaks, and R: How R-Ladies Morelia is Cultivating Science and Community in Morelia, Mexico" | ||
description: "Goretty Mendoza, the organizer of the R-Ladies Morelia, recently spoke to the R Consortium about her | ||
experience with the group and her work using R in molecular biology." | ||
author: "R Consortium" | ||
image: "RLadiesMorelia-main-image.png" | ||
date: "10/18/2024" | ||
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[Goretty Mendoza](https://www.linkedin.com/in/goretty-mendoza-785004322/), the organizer of the | ||
[R-Ladies Morelia](https://www.meetup.com/es-ES/rladies-morelia/), recently spoke to the R Consortium about her experience | ||
with the group and her work using R in molecular biology. Under her guidance, the group has grown into a supportive | ||
space for women from diverse fields, focusing on building R skills, sharing knowledge, and fostering collaboration. | ||
Goretty is committed to empowering the local R community through online and physical events that encourage learning | ||
and networking. | ||
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![](Goretty.png){width=50%} | ||
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***Please share about your background and involvement with the RUGS group.*** | ||
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I am a PhD student specializing in molecular biology, focusing on endophytic fungi. My work involves high-throughput sequencing, | ||
particularly amplicon sequencing, to study microbiomes. | ||
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I started using R during my PhD. Initially, I practiced independently through online courses, but then I discovered an | ||
R-Ladies community. The group was just starting in my city, so I took the opportunity to join. Attending the meetings | ||
helped me overcome my fear of working with R and allowed me to improve my skills. Gradually, I became more involved, | ||
and a few months ago, we had the opportunity to hold a face-to-face meeting with some members of our R-Ladies community | ||
who live in other cities, thanks to the R Consortium’s grant. I'm sure we returned home more motivated, knowing we all | ||
aim to improve our R skills. | ||
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![](RLadiesMorelia.png) | ||
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**Can you share what the local R community is like? ** | ||
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Our local R community is a group of enthusiastic women from various fields. Most of us come from science, mainly mathematics | ||
or biology, but we also have members from areas like finance or economics interested in learning R. At the start of each | ||
semester, we meet to share our interests and goals for the upcoming months. During our face-to-face meetings, we enjoy | ||
coffee and cookies, which create a welcoming atmosphere. A key focus of our group is ensuring that those with more | ||
experience in R share their knowledge with new members who are just starting. It creates an environment where everyone | ||
can learn and grow together. Our R-community is a great opportunity to get involved, collaborate with other women, | ||
and make new friends as we learn. | ||
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![](r-ladies-morelia-zoom.png) | ||
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**Please share about a project you are working on or have worked on using the R language. What is the goal/reason, result, | ||
or anything interesting related to your industry?** | ||
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I'm pursuing my PhD, and R is a tool I use almost daily. For example, I use R for a project involving the study of endophytic | ||
associations in different temperate oak species of Mexico. To this end, we initially explored the functional leaf traits of | ||
these oak species, and I had to learn different R packages for this project, such as data manipulation and visualization | ||
(e.g., [dplyr](https://dplyr.tidyverse.org/) and [ggplot2](https://ggplot2.tidyverse.org/)). Additionally, I used specialized | ||
packages like '[TPD](https://cran.r-project.org/web/packages/TPD/index.html)' to calculate metrics related to functional | ||
diversity studies and 'hypervolume' to calculate climatic niches. | ||
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Our study aimed to determine if a functional niche partitioning between two evolutionary groups of oaks allowed them to | ||
coexist. We conducted a functional niche analysis and graphical visualization using R and the packages above. An interesting | ||
finding was that the analysis suggested differences in functional similarity among the groups, indicating evidence of | ||
functional niche partitioning and resource gradients. | ||
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These studies are crucial for conservation efforts and guide the development of management practices supporting temperate | ||
forests' long-term health and resilience. | ||
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**What resources/techniques do/did you use? (Posit (RStudio), Github, Tidyverse, etc.)** | ||
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**Is this an ongoing project? Please share any details or CTA for who should get involved!** | ||
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Among the various R packages I used, some are for data manipulation and visualization, such as dplyr and ggplot2, and others | ||
more specialized, like TPD for calculating metrics used in functional diversity studies, | ||
[hypervolume](https://cran.r-project.org/web/packages/hypervolume/index.html) for constructing functional niches, and | ||
[ecospat](https://cran.r-project.org/web/packages/ecospat/index.html) to calculate climatic niche overlap indices. | ||
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We extensively utilized GitHub repositories, ensuring that all the scripts were well-documented to allow others to reproduce | ||
the analyses easily. Our ongoing project on endophytic fungi associated with oaks is crucial as a first approximation for | ||
understanding the complex interactions between fungi and their host plants. | ||
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The concept of hidden diversity is a novel and intriguing area that we are just beginning to explore. For those interested in | ||
diving deeper into this field, there are several ways to get involved. You can join professional networks in microbial ecology | ||
or engage with the field of computational biology through organizations and online communities. Additionally, participating in | ||
conferences, workshops, and collaborations with researchers and professionals in the field offers valuable opportunities to | ||
contribute to current research. | ||
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**What trends do you currently see in R language and your industry? Are there any trends you see developing in the near future?** | ||
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In metagenomics, one of the key trends is the development of massive datasets generated by next-generation sequencing (NGS). It | ||
has enabled a deeper and more detailed analysis of microbial communities and their diversity and functions. In this context, R | ||
remains an essential tool for statistical analysis and data visualization with specialized libraries like [phyloseq](https://joey711.github.io/phyloseq/) | ||
and [vegan](https://cran.r-project.org/web/packages/vegan/index.html). | ||
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However, given the complexity of metagenomic data, other programming languages like Python and [Bash](https://www.gnu.org/software/bash/) | ||
are becoming indispensable. In the near future, the use of interdisciplinary workflows that combine R, Python and Bash will continue to | ||
grow, along with the development of more integrated tools to manage large datasets. Additionally, we can expect an increased use of | ||
artificial intelligence and machine learning to analyze these data. | ||
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## How do I Join? | ||
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R Consortium’s R User Group and Small Conference Support Program (RUGS) provides grants to help R groups organize, share information, | ||
and support each other worldwide. We have given grants over the past four years, encompassing over 68,000 members in 33 countries. | ||
We would like to include you! Cash grants and meetup.com accounts are awarded based on the intended use of the funds and the amount | ||
of money available to distribute. | ||
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[https://r-consortium.org/all-projects/rugsprogram.html](https://r-consortium.org/all-projects/rugsprogram.html) |
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