SSTAR, a Stand-Alone Easy-To-Use Antimicrobial Resistance Gene Predictor by Tom J. B. de Man, Brandi M. Limbago

“…SSTAR is written in Java and is therefore platform independent and compatible with both Windows and Unix operating systems. SSTAR and its manual, which includes a simple installation guide, are freely available from https://github.com/tomdeman-bio/Sequence-Search-Tool-for-Antimicrobial-Resistance-SSTAR- . …”
Get full text

SnakeLines: integrated set of computational pipelines for sequencing reads by Budiš Jaroslav, Krampl Werner, Kucharík Marcel, Hekel Rastislav, Goga Adrián, Sitarčík Jozef, Lichvár Michal, Smol’ak Dávid, Böhmer Miroslav, Baláž Andrej, Ďuriš František, Gazdarica Juraj, Šoltys Katarína, Turňa Ján, Radvánszky Ján, Szemes Tomáš

“…Provided pipelines are embedded in virtual environments that ensure isolation of required resources from the host operating system, rapid deployment, and reproducibility of analysis across different Unix-based platforms. SnakeLines is a powerful framework for the automation of bioinformatics analyses, with emphasis on a simple set-up, modifications, extensibility, and reproducibility. …”
Get full text

Splicing Express: a software suite for alternative splicing analysis using next-generation sequencing data by Jose E. Kroll, Jihoon Kim, Lucila Ohno-Machado, Sandro J. de Souza

“…By using RNA-Seq data from the Illumina Human Body Map and the Rat Body Map, we show that Splicing Express is able to perform all tasks in a straightforward way, identifying well-known specific events.Availability and Implementation.Splicing Express is written in Perl and is suitable to run only in UNIX-like systems. More details can be found at: http://www.bioinformatics-brazil.org/splicingexpress.…”
Get full text

Predicting problems caused by component upgrades by McCamant, Stephen

Get full text

DMTCP: Transparent Checkpointing for Cluster Computations and the Desktop by Arya, Kapil, Cooperman, Gene, Ansel, Jason Andrew

“…DMTCP automatically accounts for fork, exec, ssh, mutexes/semaphores, TCP/IP sockets, UNIX domain sockets, pipes, ptys (pseudo-terminals), terminal modes, ownership of controlling terminals, signal handlers, open file descriptors, shared open file descriptors, I/O (including the readline library), shared memory (via mmap), parent-child process relationships, pid virtualization, and other operating system artifacts. …”
Get full text

Scantegrity II Municipal Election at Takoma Park: The First E2E Binding Governmental Election with Ballot Privacy by Carback, Richard T., Chaum, David, Clark, Jeremy, Conway, John, Essex, Aleksander, Herrnson, Paul S., Mayberry, Travis, Popoveniuc, Stefan, Rivest, Ronald L., Shen, Emily (Emily Huei-Yi), Sherman, Alan T., Vora, Poorvi L.

Get full text
Get full text

Chaste: A test-driven approach to software development for biological modelling by Pitt-Francis, J, Pathmanathan, P, Bernabeu, M, Bordas, R, Cooper, J, Fletcher, A, Mirams, G, Murray, P, Osborne, J, Walter, A, Chapman, S, Garny, A, van Leeuwen, I, Maini, P, Rodriguez, B, Waters, S, Whiteley, J, Byrne, H, Gavaghan, D

“…Programming language: C++. Operating system: Unix. Has the code been vectorised or parallelized?…”

Parameter and strutural retrofit of palm oil fatty acid fractionation process for improved productivity and energy efficiency by Lee, Chee Hong

“…Ahmad Kamal Bin B aderon, who helped me to operate the process simulator, ASPEN PLUS ®on UNIX platform.…”
Get full text

Welborix, a Novel Approach Towards User-Interface Technology in Well-Performance Simulation WELBORIX, une approche originale de l'interface utilisateur en simulation de tests de pu... by Overboom G. R.

“…For efficiency reasons, WELBORIX was originally developed on a SUN/UNIX workstation using COMMON LISP (with object-oriented extensions) and X-Windows. …”
Get full text

ФОРМАЛІЗАЦІЯ ІНФОРМАЦІЙНИХ ПОТОКІВ ДЛЯ ЗАХИСТУ ОПЕРАЦІЙНИХ СИСТЕМ СІМЕЙСТВА BSD ВІД НЕСАНКЦІОНОВАНОГО ДОСЛІДЖЕННЯ... by Sergiy Gnatyuk, Oleksii Verkhovets, Andrii Tolbatov, Yevheniia Krasovska

“…Програмне забезпечення (ПЗ), у тому числі операційні системи (ОС), розглядаються, як ресурс критичної інформаційної інфраструктури держави, яка як правило, будується на захищених ОС (UNIX-подібних, ОС сімейства BSD, Linux). Але будь-які ОС та користувацьке ПЗ мають недоліки та проблеми з безпекою на різних рівнях. …”
Get full text

RepEnTools: an automated repeat enrichment analysis package for ChIP-seq data reveals hUHRF1 Tandem-Tudor domain enrichment in young repeats by Michel Choudalakis, Pavel Bashtrykov, Albert Jeltsch

“…RepEnTools implementations are easily accessible even with minimal IT skills (Galaxy/UNIX). To demonstrate the performance of RepEnTools, we analysed chromatin pulldown data by the human UHRF1 TTD protein domain and discovered enrichment of TTD binding on young primate and hominid specific polymorphic repeats (SVA, L1PA1/L1HS) overlapping known enhancers and decorated with H3K4me1-K9me2/3 modifications. …”
Get full text

SENTINEL FOR APPLICATIONS IN AGRICULTURE by M. A. Gomarasca, A. Tornato, D. Spizzichino, E. Valentini, A. Taramelli, A. Taramelli, G. Satalino, M. Vincini, M. Boschetti, R. Colombo, L. Rossi, E. Borgogno Mondino, L. Perotti, W. Alberto, F. Villa

“…The innovative and strategical novelties are the complete free access to Sentinel time series imagery and digital image processing software “Sentinel toolboxes” such as SNAP (Sentinel Application Platform) for different environments (Windows, Mac, Unix). The paper introduce topics as crop mapping and monitoring, biophysical parameters, phenology and yield estimations, through several concluded or ongoing international projects such as: ERMES -FP7 (http://www.ermes-fp7space.eu/it/homepage/, Busetto et al. 2017) and SATURNO (https://www.progettosaturno.it/, Nutini et al., 2018) devoted to the regional agricultural monitoring. …”
Get full text

Prediction of fatigue crack growth for semi-elliptical surface cracks using s-version FEM under tension loading by M.S. Shaari, M.R.M. Akramin, A.K. Ariffin, S. Abdullah, Masanori Kikuchi

“…This method was developed into open-source software written in C/C++ language and built based on the UNIX operating system. The objective of this study is to perform a prediction for fatigue crack growth using the S-version FEM. …”
Get full text

Creating HiRISE digital elevation models for Mars using the open-source Ames Stereo Pipeline by A. J. Hepburn, A. J. Hepburn, T. Holt, B. Hubbard, F. Ng

“…Implemented here on a research computing cluster, this pipeline can also be used on consumer-grade UNIX computers. We produce and evaluate four digital elevation models using the pipeline presented here. …”
Get full text

Cascabel: A Scalable and Versatile Amplicon Sequence Data Analysis Pipeline Delivering Reproducible and Documented Results by Alejandro Abdala Asbun, Marc A. Besseling, Sergio Balzano, Judith D. L. van Bleijswijk, Harry J. Witte, Laura Villanueva, Laura Villanueva, Julia C. Engelmann

“…In addition, we designed Cascabel to run in any linux/unix computing environment from desktop computers to computing servers making use of parallel processing if possible. …”
Get full text

External Navigation Control and Guidance for Learning with Spatial Hypermedia by Antoon Verhoeven, Kai Warendorf

“…A local copy of the system can be downloaded for offline execution from the <A HREF="http://members.xoom.com/tverhoeven/">HyperMap site</A>, or from JIME (Mac: <A HREF="JIME-HyperMap-applet.sea">JIME-HyperMap-applet.sea</A> | PC/Unix: <A HREF="JIME-HyperMap-applet.zip">JIME-HyperMap-applet.zip</A>).…”
Get full text

Geosynchronous orbit determination using space surveillance network observations and improved radiative force modeling by Lyon, Richard Harry, 1981-

Get full text

A session-based architecture for Internet mobility by Snoeren, Mark Alexander Connell, 1975-

Get full text

MasterOfPores: A Workflow for the Analysis of Oxford Nanopore Direct RNA Sequencing Datasets by Luca Cozzuto, Huanle Liu, Leszek P. Pryszcz, Leszek P. Pryszcz, Toni Hermoso Pulido, Anna Delgado-Tejedor, Anna Delgado-Tejedor, Julia Ponomarenko, Julia Ponomarenko, Eva Maria Novoa, Eva Maria Novoa, Eva Maria Novoa, Eva Maria Novoa

“…The MasterOfPores workflow can be executed on any Unix-compatible OS on a computer, cluster or cloud without the need of installing any additional software or dependencies, and is freely available in Github (https://github.com/biocorecrg/master_of_pores). …”
Get full text

AnnotaPipeline: An integrated tool to annotate eukaryotic proteins using multi-omics data by Guilherme Augusto Maia, Vilmar Benetti Filho, Eric Kazuo Kawagoe, Tatiany Aparecida Teixeira Soratto, Renato Simões Moreira, Renato Simões Moreira, Edmundo Carlos Grisard, Edmundo Carlos Grisard, Glauber Wagner, Glauber Wagner

“…Reannotation of the available Arabidopsis thaliana, Caenorhabditis elegans, Candida albicans, Trypanosoma cruzi, and Trypanosoma rangeli genomes was performed using the AnnotaPipeline, resulting in a higher proportion of annotated proteins and a reduced proportion of hypothetical proteins when compared to the annotations publicly available for these organisms. AnnotaPipeline is a Unix-based pipeline developed using Python and is available at: https://github.com/bioinformatics-ufsc/AnnotaPipeline.…”
Get full text