Demultiplexing Nanopore reads with LAST v2

Author(s):  
David A Eccles
Keyword(s):  

This protocol is for a semi-manual method for read demultiplexing, as used after my presentation Sequencing DNA with Linux Cores and Nanopores to work out the number of reads captured by different barcodes. Input: reads as a FASTQ file, barcode sequences as a FASTA file Output: reads split into single FASTQ files per target [barcode] Note: barcode / adapter sequences are not trimmed by this protocol

2019 ◽  
Vol 11 (1) ◽  
pp. 8-19
Author(s):  
Crystal Jelita Lumban Tobing

 KPPN Medan II is one of the government organization units at the Ministry of Finance. Where leaders and employees who work at KPPN Medan II always carry out official trips between cities and outside the city. With these conditions, making SPPD documents experiencing the intensity of official travel activities carried out by employees of KPPN Medan II can be said frequently. So that in making SPPD in KPPN Medan II is still using the manual method that is recording through Microsoft Word which in the sense is less effective and efficient. In naming employees who get official assignments, officers manually entering employee data that receives official travel letters are prone to being lost because data is manually written. The web-based SPPD application is built by applying this prototyping method which is expected to facilitate SPPD KPPN Medan II management officers in making SPPD that is effective, efficient, accurate, time-saving, and not prone to losing SPPD data of KPPN Medan II employees who will has made official trips due to the existence of a special database to accommodate all SPPD files.


2012 ◽  
Vol 17 (4) ◽  
pp. 241-244
Author(s):  
Cezary Draus ◽  
Grzegorz Nowak ◽  
Maciej Nowak ◽  
Marcin Tokarski

Abstract The possibility to obtain a desired color of the product and to ensure its repeatability in the production process is highly desired in many industries such as printing, automobile, dyeing, textile, cosmetics or plastics industry. So far, most companies have traditionally used the "manual" method, relying on intuition and experience of a colorist. However, the manual preparation of multiple samples and their correction can be very time consuming and expensive. The computer technology has allowed the development of software to support the process of matching colors. Nowadays, formulation of colors is done with appropriate equipment (colorimeters, spectrophotometers, computers) and dedicated software. Computer-aided formulation is much faster and cheaper than manual formulation, because fewer corrective iterations have to be carried out, to achieve the desired result. Moreover, the colors are analyzed with regard to the metamerism, and the best recipe can be chosen, according to the specific criteria (price, quantity, availability). Optimaization problem of color formulation can be solved in many diferent ways. Authors decided to apply genetic algorithms in this domain.


2019 ◽  
Vol 12 (3) ◽  
pp. 229-237 ◽  
Author(s):  
Alban Revy ◽  
François Hallouard ◽  
Sandrine Joyeux-Klamber ◽  
Andrea Skanjeti ◽  
Catherine Rioufol ◽  
...  

Objective: Recent gallium-68 labeled peptides are of increasing interest in PET imaging in nuclear medicine. Somakit TOC® is a radiopharmaceutical kit registered in the European Union for the preparation of [68Ga]Ga-DOTA-TOC used for the diagnosis of neuroendocrine tumors. Development of a labeling process using a synthesizer is particularly interesting for the quality and reproducibility of the final product although only manual processes are described in the Summary of Product (SmPC) of the registered product. The aim of the present study was therefore to evaluate the feasibility and value of using an automated synthesizer for the preparation of [68Ga]Ga-DOTA-TOC according to the SmPC of the Somakit TOC®. Methods: Three methods of preparation were compared; each followed the SmPC of the Somakit TOC®. Over time, overheads, and overexposure were evaluated for each method. Results: Mean±SD preparation time was 26.2±0.3 minutes for the manual method, 28±0.5 minutes for the semi-automated, and 40.3±0.2 minutes for the automated method. Overcost of the semi-automated method is 0.25€ per preparation for consumables and from 0.58€ to 0.92€ for personnel costs according to the operator (respectively, technician or pharmacist). For the automated method, overcost is 70€ for consumables and from 4.06€ to 6.44€ for personnel. For the manual method, extremity exposure was 0.425mSv for the right finger, and 0.350mSv for the left finger; for both the semi-automated and automated method extremity exposure were below the limit of quantification. Conclusion: The present study reports for the first time both the feasibility of using a [68Ga]- radiopharmaceutical kit with a synthesizer and the limits for the development of a fully automated process.


Sign in / Sign up

Export Citation Format

Share Document