Hi to all SEQAnswers forum members.
My name's Robert, and I'm a stem cell researcher and bioinformatics developer. Me and my unit deal daily with next gen sequencing technologies (ChIP-Seq, RNA-Seq, RIP-Seq, Bis-Seq, and a couple of techniques we've developed), and what we've observed is that in most cases (except for standardized procedures such as reads mapping and so on), writing our own custom tools is better than dealing with third-party softwares.
Now we're planning to start an ambitious open-source project. The aim is to the develop a tool/framework to enable the ordered and non-redundant integration of genomic/epigenomic data from the billions of informations actually available on internet. First of all, we're planning to create an unique and full genes annotation by extended cross referencing between all annotations actually available (e.g. ENSEMBL, NCBI, VEGA, etc.). Next we would like to enable integration and handling of most ChIP-Seq data available from ENCODE and GEO Datasets, with quality checks on data to discard all low-quality datasets (which are actually really abundant).
Now, before starting the work, we would like to ask you all for suggestions, ideas, and what you will expect from a tool like this.
If you can spend a couple of minutes to help us (helping you), we will really appreciate that.
All my best
Robert
My name's Robert, and I'm a stem cell researcher and bioinformatics developer. Me and my unit deal daily with next gen sequencing technologies (ChIP-Seq, RNA-Seq, RIP-Seq, Bis-Seq, and a couple of techniques we've developed), and what we've observed is that in most cases (except for standardized procedures such as reads mapping and so on), writing our own custom tools is better than dealing with third-party softwares.
Now we're planning to start an ambitious open-source project. The aim is to the develop a tool/framework to enable the ordered and non-redundant integration of genomic/epigenomic data from the billions of informations actually available on internet. First of all, we're planning to create an unique and full genes annotation by extended cross referencing between all annotations actually available (e.g. ENSEMBL, NCBI, VEGA, etc.). Next we would like to enable integration and handling of most ChIP-Seq data available from ENCODE and GEO Datasets, with quality checks on data to discard all low-quality datasets (which are actually really abundant).
Now, before starting the work, we would like to ask you all for suggestions, ideas, and what you will expect from a tool like this.
If you can spend a couple of minutes to help us (helping you), we will really appreciate that.
All my best
Robert
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