Quetzal: Comprehensive Peptide Fragmentation Annotation and Visualization by Eric W. Deutsch (13887)

“…We describe how Quetzal annotates spectra using the new Human Proteome Organization (HUPO) Proteomics Standards Initiative (PSI) mzPAF standard for fragment ion peak annotation, including the Python-based code, a web-service end point that provides annotation services, and a web-based application for annotating spectra and producing publication-quality figures. …”

Data and some code used in the paper:<b>Expansion quantization network: A micro-emotion detection and annotation framework</b> by Zhou (20184816)

“…Attached is the micro-emotion annotation code based on pytorch, which can be used to annotate the Goemotions dataset by yourself, or predict the emotion classification based on the annotation results. …”

BaNDyT: Bayesian Network Modeling of Molecular Dynamics Trajectories by Elizaveta Mukhaleva (20602550)

“…We describe here the software’s uses, the methods associated with it, and a comprehensive Python interface to the underlying generalist BNM code. …”

BaNDyT: Bayesian Network Modeling of Molecular Dynamics Trajectories by Elizaveta Mukhaleva (20602550)

“…We describe here the software’s uses, the methods associated with it, and a comprehensive Python interface to the underlying generalist BNM code. …”

BaNDyT: Bayesian Network Modeling of Molecular Dynamics Trajectories by Elizaveta Mukhaleva (20602550)

“…We describe here the software’s uses, the methods associated with it, and a comprehensive Python interface to the underlying generalist BNM code. …”

Research Data and Code on Characteristics and Drivers of Plant Diversity in Viaduct Footprint Spaces of a Mountainous, High-Density City—A Case Study of Central Chongqing by Junjie Zhang (355622)

“…</li><li>Derived data including calculated plant diversity metrics and environmental factor data.</li><li>R and python code used for statistical analysis.</li></ul><p dir="ltr">Data collection was conducted through on-site field surveys in the central urban area of Chongqing, China, from April to October 2024.…”

Anisotropic Skyrmion and Multi-<i>q </i>Spin Dynamics in Centrosymmetric Gd₂PdSi₃: Data and Code by Matjaž Gomilšek (14278739)

“…Python script file<br>*.dat, [no extension] ... ASCII data file. …”

High-Throughput Mass Spectral Library Searching of Small Molecules in R with NIST MSPepSearch by Andrey Samokhin (20282728)

“…Despite the availability of numerous library search algorithms, those developed by NIST and implemented in MS Search remain predominant, partly because commercial databases (e.g., NIST, Wiley) are distributed in proprietary formats inaccessible to custom code. …”

Comparison data 7 for <i>Lamprologus ocellatus</i>. by Nicolai Kraus (19949667)

“…TIBA accepts data outputs from popular logging software and is implemented in Python and JavaScript, with all current browsers supported. …”

Sample data for <i>Neolamprologus multifasciatus</i>. by Nicolai Kraus (19949667)

“…TIBA accepts data outputs from popular logging software and is implemented in Python and JavaScript, with all current browsers supported. …”

Sample data for <i>Lamprologus ocellatus</i>. by Nicolai Kraus (19949667)

“…TIBA accepts data outputs from popular logging software and is implemented in Python and JavaScript, with all current browsers supported. …”

Comparison data 3 for <i>Lamprologus ocellatus</i>. by Nicolai Kraus (19949667)

“…TIBA accepts data outputs from popular logging software and is implemented in Python and JavaScript, with all current browsers supported. …”

Sample data for <i>Telmatochromis temporalis</i>. by Nicolai Kraus (19949667)

“…TIBA accepts data outputs from popular logging software and is implemented in Python and JavaScript, with all current browsers supported. …”

Comparison data 4 for <i>Lamprologus ocellatus</i>. by Nicolai Kraus (19949667)

“…TIBA accepts data outputs from popular logging software and is implemented in Python and JavaScript, with all current browsers supported. …”

Comparison data 1 for <i>Lamprologus ocellatus</i>. by Nicolai Kraus (19949667)

“…TIBA accepts data outputs from popular logging software and is implemented in Python and JavaScript, with all current browsers supported. …”

Comparison data 2 for <i>Lamprologus ocellatus</i>. by Nicolai Kraus (19949667)

“…TIBA accepts data outputs from popular logging software and is implemented in Python and JavaScript, with all current browsers supported. …”

Comparison data 5 for <i>Lamprologus ocellatus</i>. by Nicolai Kraus (19949667)

“…TIBA accepts data outputs from popular logging software and is implemented in Python and JavaScript, with all current browsers supported. …”

Comparison data 6 for <i>Lamprologus ocellatus</i>. by Nicolai Kraus (19949667)

“…TIBA accepts data outputs from popular logging software and is implemented in Python and JavaScript, with all current browsers supported. …”

Data and analysis code for manuscript "Preparations for ultra-high dose rate 25-90 MeV electron irradiation experiments with a compact, high-peak-current, X-band linear accelerator... by Haytham Effarah (11979509)

“…</p><p dir="ltr">The environment.yml file can create a conda virtual environment named "prep4vhee" with the required Python version and dependencies using the following conda command:</p><pre>conda env create -f environment.yml<br></pre><p dir="ltr">TOPAS input decks are also included in some folders with seeds set to reproduce Monte Carlo simulation results presented in the manuscript. …”

Workflow of T cell activation analysis. by Yitong Ma (8144697)