stringtie
stringtie copied to clipboard
gpertea
Transcript assembly and quantification for RNA-Seq
[An extra null pointer check is not needed in functions](https://isocpp.org/wiki/faq/freestore-mgmt#delete-handles-null "Do I need to check for null before delete p?") like the following. - [basic_circular_buffer](https://github.com/gpertea/stringtie/blob/b4366c542af25f9f25e37c434858718d2f757b3c/SuperReads_RNA/global-1/jellyfish/include/jellyfish/circular_buffer.hpp#L59-L62 "Destructor for basic_circular_buffer") - [Value](https://github.com/gpertea/stringtie/blob/b4366c542af25f9f25e37c434858718d2f757b3c/SuperReads_RNA/global-1/jellyfish/lib/jsoncpp.cpp#L2035-L2036...
Dear Geo, I had different assembled transcriptomes depending by the usage of STAR or HISAT2 with the latest version of stringtie. You can see a screenshot of a region I...
Hello, I’m using StringTie to process my Direct RNA Sequencing (DRS) data, and I have a few questions regarding the usage of certain parameters. Below is the command I used:...
Hello When I run --conservative mode I get very different results to when I run -t -c 1.5 -f 0.05 even though the manual says its the same. eg. my...
I'm trying to use stringtie to quantify lncRNA data, the lncRNA gtf file is generated from stringtie. I find that the expression matrix is different from the matrix generated by...
I am running the latest release (2.2.3) on an ONT dataset that is mapped to GRCm39 using minimap2. stringtie halts at the following bundle regardless how much memory space I...
If I use `--fr` or `--rf` to specify the library strandedness, my understanding is that I can use a BAM without XS tags. Am I right?
Hi StringTie team, I have been looking for answers in different forums and then thought let me write here in the hope of an answer to my simple question, which...
Hi, When I assemble transcripts using StringTie2 (-mix), the process is terminated by signal 11. I noticed that more than 70% of the reads are aligned to chromosome 6 (in...
Hi, I've been doing RNAseq analyses with the HISAT/Stringtie pipeline for the last few years. Our computing centre updated their hardware a few weeks ago and subsequently uninstalled some older...
