From d391a8a58d35deaa3b857015f50268edac7ce324 Mon Sep 17 00:00:00 2001 From: Marcel Ribeiro-Dantas Date: Mon, 22 Jul 2024 08:46:34 -0300 Subject: [PATCH] Fix linting + minor edits Signed-off-by: Marcel Ribeiro-Dantas --- src/content/blog/2024/how_i_became_a_nextflow_ambassador.md | 5 +++-- 1 file changed, 3 insertions(+), 2 deletions(-) diff --git a/src/content/blog/2024/how_i_became_a_nextflow_ambassador.md b/src/content/blog/2024/how_i_became_a_nextflow_ambassador.md index 71cd25a4..5d8a6a0d 100644 --- a/src/content/blog/2024/how_i_became_a_nextflow_ambassador.md +++ b/src/content/blog/2024/how_i_became_a_nextflow_ambassador.md @@ -11,12 +11,12 @@ icon: FirasZemzemblogIcon.jpeg community_post: true ambassador_post: true --- + As a PhD student in bioinformatics, I aimed to build robust pipelines to analyze diverse datasets throughout my research. Initially, mastering Bash scripting was a time-consuming challenge, but this journey ultimately led me to become a Nextflow Ambassador, engaging actively with the expert Nextflow community. - -My name is [Firas Zemzem](https://www.linkedin.com/in/firaszemzem/), a PhD student based in [Tunisia](https://www.google.com/search?q=things+to+do+in+tunisia&sca_esv=3b07b09e3325eaa7&sca_upv=1&udm=15&biw=1850&bih=932&ei=AS2eZuqnFpG-i-gPwciJyAk&ved=0ahUKEwiqrOiRsbqHAxUR3wIHHUFkApkQ4dUDCBA&uact=5&oq=things+to+do+in+tunisia&gs_lp=Egxnd3Mtd2l6LXNlcnAiF3RoaW5ncyB0byBkbyBpbiB0dW5pc2lhMgUQABiABDIGEAAYFhgeMgYQABgWGB4yBhAAGBYYHjIGEAAYFhgeMgYQABgWGB4yBhAAGBYYHjIGEAAYFhgeMgYQABgWGB4yCBAAGBYYHhgPSOIGULYDWNwEcAF4AZABAJgBfaAB9gGqAQMwLjK4AQPIAQD4AQGYAgOgAoYCwgIKEAAYsAMY1gQYR5gDAIgGAZAGCJIHAzEuMqAH_Aw&sclient=gws-wiz-serp) working with the Laboratory of Cytogenetics, Molecular Genetics, and Biology of Reproduction at CHU Farhat Hached Sousse. I was specialized in human genetics, focusing on studying genomics behind neurodevelopmental disorders. Hence Developing methods for detecting SNPs and variants related to my work was crucial step for advancing medical research and improving patient outcomes. On the other hand,pipelines integration and bioinformatics tools were essential in this process, enabling efficient data analysis, accurate variant detection, and streamlined workflows that enhance the reliability and reproducibility of our findings. +My name is [Firas Zemzem](https://www.linkedin.com/in/firaszemzem/), a PhD student based in [Tunisia](https://www.google.com/search?q=things+to+do+in+tunisia&sca_esv=3b07b09e3325eaa7&sca_upv=1&udm=15&biw=1850&bih=932&ei=AS2eZuqnFpG-i-gPwciJyAk&ved=0ahUKEwiqrOiRsbqHAxUR3wIHHUFkApkQ4dUDCBA&uact=5&oq=things+to+do+in+tunisia&gs_lp=Egxnd3Mtd2l6LXNlcnAiF3RoaW5ncyB0byBkbyBpbiB0dW5pc2lhMgUQABiABDIGEAAYFhgeMgYQABgWGB4yBhAAGBYYHjIGEAAYFhgeMgYQABgWGB4yBhAAGBYYHjIGEAAYFhgeMgYQABgWGB4yCBAAGBYYHhgPSOIGULYDWNwEcAF4AZABAJgBfaAB9gGqAQMwLjK4AQPIAQD4AQGYAgOgAoYCwgIKEAAYsAMY1gQYR5gDAIgGAZAGCJIHAzEuMqAH_Aw&sclient=gws-wiz-serp) working with the Laboratory of Cytogenetics, Molecular Genetics, and Biology of Reproduction at CHU Farhat Hached Sousse. I was specialized in human genetics, focusing on studying genomics behind neurodevelopmental disorders. Hence Developing methods for detecting SNPs and variants related to my work was crucial step for advancing medical research and improving patient outcomes. On the other hand, pipelines integration and bioinformatics tools were essential in this process, enabling efficient data analysis, accurate variant detection, and streamlined workflows that enhance the reliability and reproducibility of our findings. ## The initial nightmare of Bash @@ -43,6 +43,7 @@ The first time I ran my Nextflow pipeline, I was amazed by how smoothly and effi Switching from Bash scripting to Nextflow was more than just adopting a new tool. It was about embracing a new mindset. Nextflow’s emphasis on scalability, reproducibility, and ease of use transformed how I approached bioinformatics. The initial effort to learn Nextflow paid off in spades, leading to more robust, maintainable, and scalable workflows. My enthusiasm and advocacy for Nextflow didn't go unnoticed. Recently, I became a Nextflow Ambassador. This role allows me to further contribute to the community, promote best practices, and support new users as they embark on their own Nextflow journeys. ## Future Projects and Community Engagement + Currently I am working on developing a Nextflow pipeline with my team that will help in analyzing variants, providing valuable insights for medical and clinical applications. This pipeline aims to improve the accuracy and efficiency of variant detection, ultimately supporting better diagnostic for patients with various genetic conditions. As part of my ongoing efforts within the Nextflow community, I am planning a series of projects aimed at developing and sharing advanced Nextflow pipelines tailored to specific genetic rare disorder analyses. These initiative will include detailed tutorials, case studies, and collaborative efforts with other researchers to enhance the accessibility and utility of Nextflow for various bioinformatics applications. Additionally, I plan to host workshops and seminars to spread knowledge and best practices among my colleagues and other researchers. This will help foster a collaborative environment where we can all benefit from the power and flexibility of Nextflow. ## Invitation for researchers over the world