8 papers · ranked by Valyu relevance
Evan Cesanek, Sabyasachi Shivkumar, James N. Ingram, Daniel M. Wolpert
Modern virtual reality (VR) devices offer 6 degree-of-freedom kinematic data with high spatial and temporal resolution, making them powerful tools for research on sensorimotor and cognitive functions. We introduce Ouvrai, an open-source solution that facilitates the design and execution of remote VR studies…
Kari Lavikka, Jaana Oikkonen, Yilin Li, Taru Muranen + 9 more
Visualization is an indispensable facet of genomic data analysis. Despite the abundance of specialized visualization tools, there remains a distinct need for tailored solutions. However, their implementation typically requires extensive programming expertise from bioinformaticians and software developers, especially…
Kota Kambara, Sintho Wahyuning Ardie, Daisuke Tsugama
Differential gene expression analysis (DEA) via RNA sequencing (RNA-seq) is essential but remains challenging for wet-lab biologists due to command-line complexities. Centralized web platforms democratize this process but suffer from server congestion, long queuing delays, data privacy risks with proprietary datasets…
Maksim Kleverov, Daria Zenkova, Vladislav Kamenev, Margarita Sablina + 2 more
Transcriptomic profiling became a standard approach to quantify a cell state, which led to accumulation of huge amount of public gene expression datasets. However, both reuse of these datasets or analysis of newly generated ones requires a significant technical expertise. Here we present Phantasus – a user-friendly…
Yann Spöri, Jean-François Flot
Haxe is a general purpose, object-oriented programming language supporting syntactic macros. The Haxe compiler is well known for its ability to translate the source code of Haxe programs into the source code of a variety of other programming languages including Java, C++, JavaScript and Python. Although Haxe is…
Authors not listed
For decades, molecular visualization software has been fundamental to education and research in chemistry, structural biology, and materials science. These tools have enabled the inspection of structures, dynamics, and interactions, yet their reliance on two-dimensional (2D) interfaces imposes persistent limitations.…
David Meijer, Marnix H. Medema, Justin J. J. van der Hooft
Effective visualization of small molecules is paramount in conveying concepts and results in cheminformatics. Scalable vector graphics (SVG) are preferred for creating such visualizations, as SVGs can be easily altered in post-production and exported to other formats. A wide spectrum of software applications already…
Colin Diesh, Garrett J Stevens, Peter Xie, Teresa De Jesus Martinez + 16 more
We present JBrowse 2, a general-purpose genome annotation browser offering enhanced visualization of complex structural variation and evolutionary relationships. JBrowse 2 retains the core features of the open-source JavaScript genome browser JBrowse while adding new views for synteny, dotplots, breakpoints, gene…