Vitor

Hi Darek, I also would like to know how to generate a sam-xlate compatible BED file from a GTF. Please, did you figure it out? Vitor

Hi Darek, thank you for your insight. I have had no luck with the GTF -> BED12 conversion tools. Instead, I've created my own script, since the specifications that you...

Hello, I installed demuxlet from bioconda, but I get the error: ``` (base) ➜ ~ demuxlet demuxlet: error while loading shared libraries: libcrypto.so.1.0.0: cannot open shared object file: No such...

@hpages I was just sharing what worked for me. Your suggestion to reinstall irlba from source and current version of Matrix did not solve the problem for me. That's why...

I have the same error: `➜ ~ mudskipper bulk --index mudskipper_gencode_v37 --alignment 66K00047.mapped.bam --out 66K00047.transc.bam [2022-06-13T01:52:08Z INFO mudskipper] Mudskipper started... [2022-06-13T01:52:08Z INFO mudskipper::annotation] Loading parsed GTF... [2022-06-13T01:52:09Z INFO mudskipper::bam] Number...

I appreciate that the update by @yfei-w now prints out the ID for the first read found without a mate in the error message. It would be nice if such...

> @VitorAguiar , as @gmarcais wrote here - [#29 (comment)](https://github.com/OceanGenomics/mudskipper/pull/29#issuecomment-1170069840) , my current pull-request fails silently by treating the first read without a mate as a single-end read. Thanks @jelber2,...

Hi, I have the same issue.