![]() For now the FlowJo Cloud is only used for authentication of SeqGeq and FlowJo Envoy.Ĭan I load data directly from my FlowJo Envoy workflows into SeqGeq? Unfortunately there are some sequencing data analysis features requested, which SeqGeq cannot perform. We consider the following to be a list of high priority functions which we’d like to get implemented in the platform as soon as possible.ĭoes the delivery of FlowJo Cloud allow for cloud based computation for large data sets in SeqGeq? Yes, your instal of SeqGeq will come with demo data files as well as some example gene sets. To list some of the most popular – Dimensionality reduction (PCA, tSNE and LDA), Downsampling, population filtering, gene filtering, Boolean functions, differential expression analysis platform, quality control, and a whole host of features implemented by plugin, including: Autogating, KNN clustering, and drop-out event correction.ĭo you have example or demo data I can use? More features and functions than this one section can describe (see the rest of the pages in this documentation site). What tools are included with the software? Yes, you can sign up for a trial of SeqGeq, following instructions here: Yes, integration between SeqGeq and Basespace data is seamless. Alternatively you can “roll your own” by entering a vector into your data matrix by hand, in order to incorporate the meta-info.īaseSpace is Illumina’s online environment for genomics analyses. If you have a data matrix whose CellID vector matches a categorical matrix’s CellID vector, SeqGeq can merge the two! Data in the vector should be integer (SeqGeq cannot handle string value annotations correctly, yet). How can I include this information in SeqGeq? I have information from different treatments, subjects, time-points, etc (aka categorical, aka meta-information parameters) associated with my data-sets. How can I check the quality of my data matrix? How do I perform differential expression analysis in SeqGeq? Select your population(s) of interest, right click on the node, and choose “Export / Concatenate”. How do I export data-matrices from SeqGeq? If you do find other data sets which don’t appear to load into SeqGeq natively, we would very much appreciate examples to get functionality in place which will support all the outlier data types available. Workaround: You can use FlowJo to export FCS data in CSV format in order to get it into SeqGeq. As of now the only commonly used data type it won’t load directly is FCS. Yes! SeqGeq is quite versatile with regard to the data it can import. ![]() ![]() SeqGeq cannot be authorized using dongles or serial numbers. This new licensing method allows us to offer username / password based authentication – Something we’ve been eager to implement. Why do I need a free FlowJo Cloud account in order to access SeqGeq? Questions or issues for which we have a quick solution. Here are a list of some commonly encountered technical queries, regarding analyses in SeqGeq. There are a growing number of sites performing single cell sequencing experiments, and with them come lots of great questions. ![]()
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