Category: Tips
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Restriction enzyme sites and tooltips.
EDIT: April 12, 2019 From MacVector 16 and later the setting for the Automatic RE Analysis is in: PREFERENCES | SCAN DNA | RESTRICTION SITES Quickly viewing the recognition sequence and cut site of a restriction site is very easy in the Map tab. If you hover your mouse over a restriction site in the Map…
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MacVector, Yosemite and increasing dialog window sizes!
There’s a small bug in Yosemite that causes the size of the dialog windows to increase in size. MacVector is affected by this problem. Basically every time you use a dialog its size increases slightly. Over time the dialog becomes too large to fit on the screen and you will have problems clicking the buttons.…
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Keep Blast running on MacVector 12.7.5 and earlier versions.
If you are running MacVector 12.7.5 or earlier Blast will stop working for you from the end of this month. The fix for this is below. MacVector makes it easy to run a Blast search from your Desktop, and retrieve the hits directly back into MacVector. MacVector does this by submitting these Blast searches directly…
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MacVector 13 training Workshop at the Gurdon Institute
When: Thursday 23rd October from 11:30 until 13:30 Where: The Gurdon Institute, Level 1 meeting room Chris Lindley of MacVector, Inc. will be giving a workshop for both novice and advanced users of MacVector, reviewing both basic and advanced functions in MacVector. In particular, he will highlight the new functionality introduced over the last few years.…
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Free teaching licenses!
It’s that time of year when summer is coming to a close and you need to get ready for teaching again! However, to make you feel a little better, did you know that you can get FREE licenses for teaching purposes? MacVector makes a great teaching tool and we offer free teaching licenses for anyone…
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Online updating with Sparkle
Having to update software is an annoying, but essential, part of modern computing life! All software has bugs that need fixing and good software should add new features as well. We try with MacVector to do both, But that means that from time to time you will need to download and install a new version.…
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Using Applescript to batch convert files.
Up until MacVector 13 Applescript support was fairly limited. However, with this release we’ve started to expand it. The first enhancement has been to improve the export of files. Now you can export files to any supported format. Over the next few releases this support will be further expanded to include some analysis tools. If…
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Accessing BAM files from an Assembly Project file
All assemblies are stored using the BAM file format. This is a binary file that stores each read and where and which consensus/contig/reference it is mapped against. It is a compressed version of the pure text SAM format. For some post assembly tasks it is necessary to do further processing on the BAM file. To…
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de novo assembly with Velvet
Velvet is a short read aligner that works very well on a wide variety of reads. Velvet excels at de novo assembly of sequencing reads from second and newer generation sequencers. In our latest release, MacVector 13, we’ve added Velvet to Assembler. This joins the existing tools, Phrap for Sanger sequencing reads and Bowtie for…
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Calculating the melting temperature of PCR primers
Calculating an accurate melting temperature of your oligos, your template and of the predicted product is important to set the cycling parameters of your PCR machine. The Tm calculations in MacVector were updated in MacVector 12.6 to use a more modern algorithm. MacVector has always used thermodynamic “nearest neighbor” calculations, but there were two changes…