General musings from the MacVector team about sequence analysis, molecular biology, the Mac in general and of course your favorite sequence analysis app for the Mac!

Author Archives: Chris

Automatically displaying open reading frames with MacVector’s Scan For Open Reading Frames tool

As well as Scan for.. Missing Features that shows annotation on your sequences, you may have noticed extra CDS features annotated to your sequences. These are from the Scan for.. Open Reading Frames tool that automatically scans every DNA sequence window for open reading frames and displays the results in the Map tab. It’s very useful, […]

Posted in Tips | Tagged , , | Leave a comment

Pasting tabular data from MacVector into Microsoft Excel

There are a number of MacVector analyses that generate tabular text output. Examples include the Protein Analysis Toolbox List output, the Raw Data tab of the ABI chromatogram document window, the Matrix tab of the multiple sequence alignment document windows and the Coverage tab of the Bowtie contig editor. Each of these is actually composed […]

Posted in Tips | Tagged , | Leave a comment

Using MacVector’s Agarose Gel tool to design a digest to screen minipreps after a ligation.

How to design a digest to screen minipreps after a ligation. (View full size on website…) Tweet

Posted in Techniques, Tips | Tagged , , , | Leave a comment

MacVector and macOS Mojave

Apple released macOS Mojave today (Tuesday 25th September). Over the past few months we have performed preliminary testing with MacVector 16.0.9 on various development releases of macOS Mojave through its development cycle and all appears to be well. So whereas we cannot state MacVector is compatible until it is officially released, we can say that […]

Posted in Uncategorized | Tagged , , | Leave a comment

Free MacVector Teaching licenses

Did you know that MacVector, Inc. offers FREE licenses for teaching purposes? If you are in the process of either preparing your lab for the upcoming year, or preparing for the courses you need to teach then don’t forgot that MacVector makes a great teaching tool. We offer free teaching licenses for anyone with an […]

Posted in General | Tagged | Leave a comment

NOW CANCELLED MacVector are at the NIH Research Festival

NIH Research Festival Tent show September 13-14, 2018 Due to the forecast storm the Tent Show has been postponed. As soon as we know the rescheduled date we’ll update. We’re at the NIH Research Festival this week. Please drop by our booth on Thursday or Friday, when the big, white exhibitors tent is open. We’re […]

Posted in Meetings | Tagged , | Leave a comment

MacVector and future releases of macOS

The next OS release for the Mac will arrive later this year. MacOS Mojave is a significant OS upgrade and includes a lot of new features, especially when compared with the differences between OS X El Capitan, macOS Sierra and macOS High Sierra. Our developers have been hard at work ensuring that when macOS Mojave […]

Posted in Development | Tagged , | Comments closed

RNASeq Expression Analysis with MacVector and Assembler

If you have the Assembler module, MacVector can align millions of NGS reads from RNASeq experiments against large genomes and generate a coverage table displaying the relative expression levels of every gene in a genome. The key to this functionality is that you must have a reference genome with genes annotated as CDS or gene […]

Posted in Techniques, Tips | Tagged , , , | Comments closed

How to split large fastq files for more manageable assemblies

We’ve previously discussed how important it can be to make sure you are using the appropriate number of fastq reads from an NGS experiment to ensure you obtain the results you are looking for. Using too many reads can confuse algorithms with the massive coverage increasing mis-assemblies due to background errors in the reads. In […]

Posted in Techniques, Tips | Tagged , , , | Comments closed

Balancing Velvet KMER and coverage

The Velvet assembly algorithm in MacVector is blazingly fast and generates excellent assemblies. However, you do have to be careful when assembling NGS data to be sure that the parameters you submit are appropriate for the data you are assembling in order to get optimal results. By far the most important parameter is the KMER […]

Posted in Tips | Tagged , , , | Comments closed