-
**Are you using the latest release?**
If you are not using the latest release of funannotate, please upgrade, if bug persists then report here.
v1.8.13
**Describe the bug**
A clear and concise des…
-
I'm aligning long assembled contigs (from Supernova) to hg19. Occasionally bwa mem will generate long runs of bad alignments with many long indels, for sequence that actually matches well.
From tra…
-
this is now running by default in bcbio, we should incorporate it with an explanation why.
Also Rory says:
"Also, I’ve been turning on quantitate_genome_alignments which uses the STAR alignments…
-
Hi!
This is such a cool dataset. Really appreciate you making it available.
I am trying to work with the set of 430 koala genomes. Are there available assemblies for the genomes? I see the raw …
-
Hi Brian,
I would like to ask you about the file xxx.sqlite.failed_blat_alignments.gtf mainly contains what types of genes(Specifically, what tagged genes can't be matched here) after the first step …
-
Hi,
I'm trying to run AnchorWave on a pair of non-plant genomes. Whether I use minimap2 or gmap when I run the `anchorwave genoAli` function I see the following:
```
AVX2 is enabled
reading re…
-
Hi,
Thank you for developing such an amazing tool to identify gene fusion from RNASeq data. I have 30 cancer sample Toral RNASeq data and 10 Benign sample Total RNASeq data. My focus is to identify …
-
Any plans on adding CIGAR strings to SAM output so I can load the alignments in a genome browser?
_Originally posted by @yhoogstrate in https://github.com/vpc-ccg/circminer/issues/4#issuecomment-64…
fhach updated
4 years ago
-
HI,gpertea.
Histat2 can add XS tag for all read alignments,I have a stranded library (fr-firststrand) data, I use STAR to mapping genome and set options --outSAMstrandField intronMotif which can add …
-
Do the authors have any recommendations for a tool to generate fast bacterial genome alignments that can be input to snp-sites?