Entering edit mode
5.5 years ago
dileepbiochem77
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0
Dear all, I am new for bioinformatics and feel very confusing about de novo assembly of raw illumina reads of RNA seq. I have performed Fastqc analysis and high quality reads are selected for denove assembly. I have started denove transcriptome assembly at DNA star. This software has different options for de novo assembly. I clicked all the option but one option ask for the transcriptome annotation databases, when i clicked on option Download database option it showed an error message 'error connecting to the server. Please check your internet connection'' while i have internet connection. Kindly help me. Thank you very much in advance.
All the commercial software have a dedicated technical support. It would be useful to contact them as most of the people here use open-source tools.
Having an internet connection is a very different thing of having a connection to a private server. But additionally, if you spend money in an NGS experiment why not spend a bit more contacting a professional bioinformatics analyst? NGS projects may be translated into large and interesting results if you do it correctly.
there are many steps that you may fail if are noob. I am sorry if I sound rude but these problems are a bit complicated than server connection.
This may simply be a case of local firewall restrictions not allowing access. Have you looked into that possibility? It is also possible that whatever database the program is trying to connect to is down at the moment.
Why not use free-to-use tools? I wrote a long section about considerations for RNAseq quantification including links to (free) state-of-the-art tools here.