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Showing 28 open source projects for "bed"
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Marlin
Optimized firmware for RepRap 3D printers based on Arduino platform
Marlin is a popular open source firmware for the RepRap family of 3D printers. It is straightforward, reliable, extensible and adaptable, which is why it is used by many respected commercial 3D printer vendors as well as hobbyists. It runs on inexpensive 8-bit Atmel AVR micro-controllers, with added support for 32-bit and ARM-based boards. Marlin builds can be small enough for use on a headless printer with only modest hardware, and features can be enabled as-needed. -
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BEDS - Bed Evaluation & Design System
A system for designing and evaluating patient flow in hospitals.
BEDS evaluates patient flow in hospitals. Specifically, BEDS evaluates the occupancy of beds and the probability of receiving a bed on arrival to the hospital. BEDS is built on the assumption that patients arrive with a stationary intensity, and that the distribution governing their length-of-stay is also stationary. Thus, BEDS works only when modeling inpatient wards. BEDS further assumes a setup consisting of a number of patient types and wards. The wards contain a fixed capacity. Patient... -
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OctoPrint
OctoPrint is the snappy web interface for your 3D printer
... newest thing. Get constant feedback regarding the current progress of your print job. Take a look at the integrated GCODE visualizer to see a rendition of the GCODE you are currently printing. Keep an eye on the temperatures of your hotends and print bed and adapt them on the fly. Move the print head along all axes, extrude, retract or just define your own custom controls. -
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crossmap
convert genome coordinates betweeen assemblies
CrossMap is a program for convenient conversion of genome coordinates and genomeannotation files between assemblies (eg. lift from GRCh36/hg18 to GRCh37/hg19 or vice versa).It support file in BAM, SAM, BED, Wiggle, BigWig, GFF, GTF format. -
Free and Open Source HR SoftwareGive your HR team the tools they need to streamline administrative tasks, support employees, and make informed decisions with the OrangeHRM free and open source HR software.
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SqPronterface
Port of MacPronterface to Squeak (Smalltalk)
Port/mashup of MacPronterface to Squeak. The Squeak VM used is the classic Carbon VM so can run in Intel Macs or in the old PPC Macs, so if you have some old iBook you use for controlling the 3D-printer. Implement most of the funcionality of MacPronterface, such as macros, bed/heat graphics, settings. -
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my3DPrinter-Tevo-Tarantula
Tevo Tarantula 3D printer
Welcome to the my3D printer Tevo Tarantula site. Here you find find firmware, upgrades, modifications and new parts to make your Tevo Tarantula even better. Full users guide taking you from once assembled to printing. Step by step detailed instructions. Also see my 3D Projects site at https://sourceforge.net/projects/my-3d-projects -
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Root Phenotyping Suite
Three different software tools for phenotyping plant root images
RootAnalyzer is a fully automated tool, for efficiently extracting and analyzing anatomical traits from root-cross section images. RootAnalyzer segments the plant root from the image's background, classifies and characterizes the cortex, stele, endodermis and metaxylem, and produces statistics about the morphological properties of the root cells and tissues. RTipC is a system for the fully automated detection and classification of root tips in root images obtained either by 2d flat bed... -
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HIGH-THROUGHPUT TABULAR DATA PROCESSOR (HTDP) is Java application that is intended to facilitate data exploration and reduction tasks in large text files resulting from high throughput technologies, e.g. massively parallel sequencing or microarrays. The software has been optimized for microarray and deep parallel sequencing data, however it can accept any character delimited tabular data sets. HTDP can also import, process and convert Variant Call Format (VCF) files ver. 4.0, 4.1 and 4.2...
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RTToolbox
Library to support quantitative analysis of radiotherapy data
... the full range of radiotherapy evaluation. Tools such as DVH calculation, arithmetic operations on dose distributions and structure relationship analysis are provided as a basis for further calculations. Dose comparison indices such as Conformity Index (CI), Homogeneity Index (HI) and Conformation Number (CN), and biological models including TCP, NTCP, EUD and BED are determined from dose distributions and DVHs. The RTToolbox can be easily extended to support other data format, comparison indices and -
HRSoft Compensation - Human Resources SoftwareManage your enterprise’s compensation lifecycle and accurately recognize top performers with a digitized, integrated system. Keep employees invested and your HR team in control while preventing compensation chaos.
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P3BSseq
Parallel processing pipeline for analysis of bisulfite sequencing data
..., generates BED methylome and report files following the NIH standards. P3BSseq outperforms the known BSseq mappers regarding running time, computer hardware requirements. We optimized the P3BSseq parameters for both directional and non-directional libraries, and for both single-end and paired-end reads of Whole Genome and Reduced Representation BSseq. P3BSseq is a user-friendly streamlined solution for BSseq upstream analysis, requiring only basic computer and NGS knowledge. -
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RGAAT
Reference based genome assembly and annotation for new genome
This program can assemble and/or annotate genome for new genome and known genome upgrade using sequence alignment file (SAM or BAM format), sequence variant file (VCF format or five coloum table (tab-delimited, including chromosome, position, id, reference allele and alternative allele)) or new genome sequence file (FASTA format) based on reference genome sequence file (FASTA format) and annotation file (TBL, GTF, GFF, GFF3 or BED format). -
12
Auto Primer3
Automatically design primers to genes/coordinates using primer3.
PLEASE NOTE: THIS PROJECT PAGE WILL NO LONGER BE UPDATED - PLEASE USE THE GITHUB PAGE (https://github.com/gantzgraf/autoprimer3) TO FIND THE LATEST RELEASE (https://github.com/gantzgraf/autoprimer3/releases/latest). AutoPrimer3 retrieves gene information, DNA sequences and SNP information from the UCSC genome browser and uses primer3 to automatically design primers to genes or genomic coordinate targets. Primers may be designed using information from any of the UCSC hosted genomes... -
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Athus
Manage, merge, filter and convert population genetics data
This project assists you in performing population genetic analyses by taking over the ugly, boring and error-prone data manipulation steps. Starting from well specified input formats VCF, BED and FASTA and a unique configuration file describing data (f.e. from SNP-arrays or sequencing) as well as filtering one can create standard POPGEN formats like Eigenstrat, PEDMAP (PLINK), Treemix ... In addition there are several utilities for * generating VCF from SNPArray data (NCBI - GEO, Illumina... -
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CADET
Chromatography Analysis and Design Toolkit
We have moved to GitHub: https://github.com/modsim/cadet The Chromatography Analysis and Design Toolkit (CADET) is developed at the Institute of Bio- and Geosciences 1 (IBG-1) under supervision of Dr. Eric von Lieres. The core of the CADET software is a fast and accurate solver for the General Rate Model (GRM) of packed bed liquid chromatography. The CADET solver covers a wide range of GRM variants, combining different transport and binding models with state-of-the-art mathematical... -
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GenomeRunner
Annotation and enrichment of Next-Gen sequencing data
Note: This version requires additional SQLite database files. Contact the developers to obtain them. Use http://www.integrativegenomics.org/ for the latest data and analyses. GenomeRunner is a tool for automating genome exploration. It performs annotation and enrichment analyses of user-provided genomic regions (SNPs, ChIP-seq binding sites etc.) against >6,000 (human genome) epigenomic features available from the UCSC genome browser. Input - any genome-wide data data in .bed format... -
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Black Spot Leaf Area Calculator
Automated leaf area estimation from scanned leaf images
Black Spot is a free stand alone software and method to estimate leaf area from images of leaves captured using standard flatbed scanners. This easy to use software allows the user to batch process a large number of samples from multiple species with minimal user input. -
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GenOO-HTS
A Modern Perl Framework for High Throughput Sequencing analysis
GenOO-HTS [jee-noo] is an open-source; object-oriented Perl framework specifically developed for the design of High Throughput Sequencing (HTS) analysis tools. The primary aim of GenOO-HTS is to make simple HTS analyses easy and complicated analyses possible. GenOO-HTS models biological entities into Perl objects and provides relevant attributes and methods that allow for the manipulation of high throughput sequencing data. Using GenOO-HTS as a core development module reduces the overhead... -
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virtualStapler
Large Script Workaround
... went to bed already... so it waits for you to return. which means next morning you spend the next 6 hours clicking 'n' every 3 minutes. my little program sends an 'n' to the keyboard every 5 seconds so you don't have to. it's a bit more elegant than a stapler or a coffe mug or something, and is less likely to come off by accident, or spill stuff over your keyboard when your cat sees it . -
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iPiG
Integrating PSMs into Genome browser visualisations
iPiG targets the integration of peptide spectrum matches (PSMs) from mass spectrometry (MS) peptide identifications into genomic visualisations provided by genome browser such as the UCSC genome browser (http://genome.ucsc.edu/). iPiG takes PSMs from the MS standard format mzIdentML (*.mzid) or in text format and provides results in genome track formats (BED and GFF3 files), which can be easily imported into genome browsers. For more details about iPiG and it's functionallity, please... -
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SmileSmith
it's a small care assistant
SmileSmith is a brain wave control + head control assistive communication tool,The original idea was to help mother ill for a long stay in bed and the exchange,Now the mother has died,This will be the software open source,Hope one day to the benefit of others. SmileSmith need at least three devices: A brain wave controller + A camera + A computer Adobe Flash Player 10+ -
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CNV Workshop is a web-enabled platform for analyzing genome variation such as copy number variation (CNV). Learn about CNV Workshop in our associated BMC Bioinformatics manuscript: http://www.biomedcentral.com/1471-2105/11/74
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SeqGenome Browser, a mini cross-platform local genome browser, was designed for visualizing next-generation sequencing data. It is light, fast and easy to use.
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BEDTools is a suite of utilities for comparing genomic features in BED format. These utilities allow one to quickly address tasks such as: 1. Intersecting two BED files. 2. Merge overlapping features. 3. Paired-end overlaps.
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An open source research test bed for investigating decision-making in groups comprising people, computers and a mix of these two.
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The Robot-based Imaging Test-bed (RIT) is an open source toolkit designed to be used with a network of wireless robots with imaging cameras.