-
I am working on a project, which include RNA-seq data generated by total RNA library sequencing, with no specific filter for mRNA or enrichment for nascent RNA. Using IGV, my mapping bam files include…
-
Hi, in the model fitting step, I notice that there is a problem:
```
---------------------------------------------------------------------------
ValueError Tracebac…
-
-
> We have generated multiple scATAC-seq data sets for which scRNA-seq is
> also available. New methods have appeared to integrate (warp) such data
> sets, such as Seurat v3 and [Liger](https://githu…
-
This was reported by one of the users during Seattle Workshop.
Data analyzed with Cufflinks in particular were reported to be susceptible to batch effects. The tuxedo pipeline was replaced in 2016…
-
I understand that while performing RNA seq analysis Patric will use its own annotation, but the output table does provides both the Patric and RefSeq annotations on adjacent columns. It will be useful…
-
Hi all,
These three new terms will be added to the ontology in order to allow curation of some types of RNA interactions and RNA/DNA-related features:
[Term]
id: MI:2201
name: DNA chemical modificat…
-
Hello @lakigigar and co-developers,
we're currently running @chapmanb's [bcbio](https://github.com/chapmanb/bcbio-nextgen) in production for quantitating RNA-Seq expression and calling gene fusion ev…
-
Hi
I am currently using afterqc to do QC trimming of the reads. Generally it performs well, removes adapters etc. However I noticed it doesn't seem to screen out primers. Would it be possible to h…
-
Currently micro-RNAs are extracted with transcriptional activity from databases (as subjects of RegulateAmount Statements). We should introduce a special activity type for the regulatory activity of m…