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Quickly checking a small sequencing project
Read more: Quickly checking a small sequencing projectFor analysing large sequencing datasets, whether de novo or mapping reads against a reference you need Assembler. However, many times you do not need a powerful tool but just a quick way to check some sequencing data. For example for checking small sequencing projects, such as a site directed mutagenesis, looking for SNPs in a…
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101 things you (maybe) didn’t know about MacVector: #42 – Managing segmented features
Read more: 101 things you (maybe) didn’t know about MacVector: #42 – Managing segmented featuresIf you download eukaryotic genomes from GenBank, you will find that many coding (i.e. CDS) features are segmented and consist of multiple individual segments joined together into a single long feature. You can see an example of this with the human cystic fibrosis transmembrane regulator gene – you find a copy of this in the…
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Upgrade MacVector with a 30% discount during April
Read more: Upgrade MacVector with a 30% discount during AprilDon’t be an April Fool, upgrade with a…. 30% discount … before MacVector 14 is released in May. This is no April Fool’s joke. Here’s a great way to upgrade your copy of MacVector before the release of MacVector 14 next month. For the entire month of April you will get a 30% discount on…
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101 things you (maybe) didn’t know about MacVector: #41 – Extracting raw data from chromatogram files
Read more: 101 things you (maybe) didn’t know about MacVector: #41 – Extracting raw data from chromatogram filesHave you ever wanted to know exactly what the total signal value is for individual peaks in a chromatogram file? Perhaps you are looking for mixtures of residues at a particular location and want to get some idea of the relative proportions? You can open .ab1 and .scf chromatogram files directly in MacVector and view…
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UNIX line endings for plain text files
Read more: UNIX line endings for plain text filesSometimes you may need to export data out of MacVector for further analysis with a command line tool or sending a file to a colleague who does not have MacVector). For example exporting the VCF report out of a reference assembly or exporting a sequence into Genbank format. If these files are plain text, then…
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101 things you (maybe) didn’t know about MacVector: #40 – Removing gaps from a DNA or protein sequence
Read more: 101 things you (maybe) didn’t know about MacVector: #40 – Removing gaps from a DNA or protein sequenceThere are often times when you end up with a sequence containing gaps, especially if you make extensive use of the Align To Reference, Contig Assembly or Multiple Sequence Alignment interfaces to generate consensus sequences. You can select and copy the consensus sequence, or even individual aligned reads, from the Align To Reference and Contig…
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MacVector 13.5.3 is out
Read more: MacVector 13.5.3 is outThere’s a new release of MacVector out. If you are on OS X 10.10 to OS X 10.7 then just update through Sparkle as normal. However, we have seen issues doing that on Snow Leopard, so please use the downloadable installer instead. Ironically some of the bug fixes are for OS X 10.6, but there’s…
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Restriction enzyme sites and tooltips.
Read more: 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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101 things you (maybe) didn’t know about MacVector: #39 – Viewing sequence residues in the Map view
Read more: 101 things you (maybe) didn’t know about MacVector: #39 – Viewing sequence residues in the Map viewOK, so this is a very simple tip that many users already know about. But we get enough queries about this functionality that its useful to go over it. The Editor tab has a fair amount of functionality, but it really is designed for editing of sequences at the residue level – we don’t directly…
