Questions tagged [rna-alignment]

The tag has no usage guidance.

4 questions with no upvoted or accepted answers
Filter by
Sorted by
Tagged with
2 votes
1 answer

Merging ssu-align alignments

ssu-align is an HMM-based MSA tool for ribosome's small subunit (SSU) sequences. It's bundled with three SSU models: archaeal, bacterial eukaryotic Approach Given a set of archaeal and ...
Eli Korvigo's user avatar
1 vote
0 answers

How to correctly parallelise RSeQC scripts with GNU parallel?

I have a .bam, as ouput from STAR aligner, from which I need to extract some info using RSeQC while using all the computational resources available to increase ...
Tain Luquez's user avatar
0 votes
0 answers

Assertion `compressBound(0xff00) < 0x10000' failed when using STAR 2.7.9a

I am using STAR 2.7.9a. In the last two days, I am getting an error when running alignments with STAR (independently from the data and genome index I am using). What could be causing this error, which ...
RobAlbn's user avatar
0 votes
0 answers

Best way to align to find inserted sequence

We have some RNA from knock-in mice, there are two different sequences we're looking for. We have aligned to the mouse genome using STAR but the sequence isn't there which isn't too surprising What is ...
Sethzard's user avatar