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# Li, Dong, Wu et al. 2016
## bioRxiv
*http://doi.org/10.1101/086421*
## Abstract
> Characterizing the binding behaviors of RNA-binding proteins (RBPs) is important for understanding
thei…
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Hi,
We'd like to compute the AEI on some samples with a modified pipeline of RNA editing identification, so we need to skip the variant calling step and compute the AEI directly based on the result…
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What functionalities are available in JacusaHelper for looking at RRD data? The documentation says that AddBaseChangeInfo, AddEditingFrequencyInfo, etc. are only applicable for RDD data. Why is this t…
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Hello,
I am getting an empty CDS file from running gff2seq with no error message.
My command is `anchorwave gff2seq -i GCF_003119195.2_ASM311919v2_genomic.gff -r GCF_003119195.2_ASM311919v2_genom…
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I would like to request additional information for the Epitranscriptome data page at `/epitranscriptome_data`. The page should cover in a bit more detail the kind of metadata that should be stored wit…
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Hi,
I'm trying to install RNA Editing Indexer via instruction provide, but when i run ./configure.sh, something with Bam Utils happens.
```
BEDTools Path Executable Test - Succeeded
BEDTools Ver…
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Hi, Qing,
I'm using GIREMI to find some RNAE in my RNA-seq data. I have good aligned file src.bam, reads are paired end (and properly paired). I'm performing following steps:
1. Sorting bam in c…
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Hi,
We are using the -a E option to filter known SNPs based on a VCF file. In this example, the VCF file we are using for input was obtained UCSC, here: ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/hu…
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Kindly comment on this issue why you are interested in this mini-project
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As mentioned in #4, this pipeline is supposed to target any distinct transcriptome sequence, meaning anything that has never been observed in any DNA before. (I don't think we need to worry about RNA …