-
Thanks for developing the easy use software!
We found the genome size estimate of our arthropod assembly was quite dependent the max k-mer coverage . The genome size is 30% larger after increasing…
-
When running:
` sh ./run_coverage_analysis.sh /genomes/analysis/by_date/2015-10-23/0000074602/LP2000860-DNA_B04/coverage/LP2000860-DNA_B04.bw /genomes/analysis/by_date/2015-10-23/0000074602/LP200…
-
Hi,
I have PacBIO Hifi reads (~4kb) with very 200-300x coverage, as well as 30x PCR-free WGS data for around 30 normal human samples. I'm particularly interested in one region around 400kb long, th…
-
Hi, I am trying to reanalyze the data, but I am confused about the data in tableS3. Thank you !
**Q1:** Why are the results in Table S1 and Table S3 so different? Did you do additional filtering for …
-
Thank you for creating such a great tool.
Does your tool work with CosMx and Xenium, not just Visium?
-
Hi there,
I would like to apply OFF-PEAK to some targeted EM-seq data (obtained using the Twist Methylome Panel). However, since the tool was designed specifically for exome sequencing data, all ta…
-
Hi Iskatz,
I need to compute assembly metrics, including coverage. My input data files are single-end fastq and the genome assembly fasta .
In the documentation, paired-end reads must be shuffled - …
-
As discussed in #2474, `vg augment` doesn't scale well when moving from 30X to 300X coverage. It seems that at that depth, we can expect errors at every base, and the graph gets turned into noise.
…
-
**Describe the issue**
We recently updated the RepeatModeler version used on our HPC cluster from 2.0.1 to 2.0.4 and shortly after to 2.0.5. When running RepeatModeler and RepeatMasker on very simi…
-
Hello!Chenxi,@c-zhou
When I run the code
`syncasm -k 1001 -c 100 -t 48 -o green green.fastq`
I got a error:
![6b87038b96b0c9a89580983860337bf](https://github.com/c-zhou/oatk/assets/55218372/fd8c…