4 citations · 7 across the 6 of their papers we have counts for
6 papers
Ten simple rules for non-visual, reproducible and accessible bioinformatics
Jacqueline G. Kientsch, Stephan C. F. Neuhauss, Izaskun Mallona
Bioinformatics workflows rely heavily on visual representations. Quality-control plots, cell embeddings, heatmaps, genome-browser tracks, and interactive dashboards are not merely…
denet, A lightweight command-line tool for process monitoring in benchmarking and beyond
Ben Carrillo, Izaskun Mallona
Summary: denet is a lightweight process monitoring tool providing real-time resource profiling of running processes. It reports CPU, memory, disk I/O, network activity, and thread…
Harnessing the Potential of Spatial Statistics for Spatial Omics Data with pasta
Martin Emons, Samuel Gunz, Helena L. Crowell +3
Spatial omics assays allow for the molecular characterisation of cells in their spatial context. Notably, the two main technological streams, imaging-based and high-throughput sequ…
Omnibenchmark: transparent, reproducible, extensible and standardized orchestration of solo and collaborative benchmarks
Izaskun Mallona, Almut Luetge, Ben Carrillo +6
Benchmarking involves designing, running and disseminating rigorous performance assessments of methods, most often for data analysis and software tools, but the process can also be…
Building a continuous benchmarking ecosystem in bioinformatics
Izaskun Mallona, Charlotte Soneson, Ben Carrillo +5
Benchmarking, which involves collecting reference datasets and demonstrating method performances, is a requirement for the development of new computational tools, but also becomes…
Ten simple rules for collaborating with wet lab researchers for computational researchers
Mark D. Robinson, Peiying Cai, Martin Emons +10
Computational biologists are frequently engaged in collaborative data analysis with wet lab researchers. These interdisciplinary projects, as necessary as they are to the scientifi…