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Hi there
I am using ngmlr with some raw nanopore reads and its working fine with "--presets ont", However, my average readlength and coverage is not too great, so I was exploring changes to some pa…
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## Context
**Issue type** (bug report):
**Operating system** (CentOS 7.3.1611):
**Platform** (x86_64 GNU/Linux):
**OpenSlide Python version** (1.1.0):
**Slide format** (SVS):
## Details…
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Hello,
I ran svaba on few BAM files (similar samples) . I observed that a SV call is made in some samples and not in others, even though the discordant reads can be seen in the BAM files for all sa…
pwanj updated
5 years ago
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@dclunie @wlongabaugh has identified an issue with straight Zoom in SM viewer on 6/15/2022
(Slide: TCGA-OR-A5J2-01A-01-TS1)
Zooming straight in (no panning) gives inconsistent zoom and black bo…
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Hi,
Many thanks for making all code and data available. I am very keen to access this file (https://cgl.gi.ucsc.edu/data/giraffe/products/vggiraffe-sv-relkgp-raw.vcf.gz) reflecting the SV calls fro…
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I have larger sizes (more than 10GB) of microscope slides (ndpi, svs, tiff) images. To display that existing project member using the open layer 3 versions. While loading some images are converted int…
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When I install samplot using "conda -c bioconda samplot", it always reports the error: "UnsatisfiableError: The following specifications were found to be incompatible with each other:
Output in forma…
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Hi,
I am quite puzzled about how to appropriately set the number of different types of mutations when simulating a human cancer genome.
Could you provide me with some guidance on this matter?
…
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Hi,
We make a artificial inversion at seg_1055417_1063416:5080 to seg_1055417_1063416:7653 to test svaba in our data.
Then we run simulate fastq use newest svaba with default parameter.
A inversion…
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Hi,
I'm using SURVIVOR (v1.0.7) for the first time and trying out some test data.
I've generated a params file using
`SURVIVOR simSV test_params.param`
and then simulated the SVs onto a reference…