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Hello,
I have noticed that some of my outputs do not create a consensus or haplotype fasta file. I wanted to make sure I understood the issue so I looked at the `rvhaplo.sh` script and captured the…
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If we can't do a great job with cell types, what can we do with assigning tumor/normal status?
Especially inferring CNV status.
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Hello,
Do you think it is possible to use LDna on a large number of SNPs (>1 000 000) obtained through Whole-genome sequencing? If so what would you recommend to build the LD matrix?
Thanks
Claire
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Dear sourmash-bio team,
this is a feature request.
Unlike nt-genomes I am comparing protein based minhashes.
Here, every single protein of one species and its corresponding minhash is compared to a…
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Hello,
I used HapHiC for chromosome scaffolding. However, since my species has a large number of chromosomes including microchromosomes, there is a significant size difference between the chromoso…
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Hello,
I am experimenting with different tools for transcriptome assembly on a data set of RNA-seq reads from tomato I obtained from SRA. I used StringTie to assemble the transcriptome and then ran…
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Hi Malte,
I'm getting an error (see below) when using quickEnhancers function.
The quickTSSs function worked without an issue.
Best
Bogumil
> enhancers
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Hello there, using the sample dataset I run the test run in order to see if all works, but not.
Here the command and the output i get:
> ./tools/bin/bpipe` necklace.groovy data/data.txt`
WARNING…
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I have created the copy number input file, normal file as well as the tumor file. I followed the format according to the Manual instruction.
When I only run RunTHetA with just the copy number file, i…
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Hi,
When running the pair-wise MASH clustering step, I consistently encounter pauses. It often takes repeating the process a dozen or even more times for it to run successfully. What might be the c…
RChGO updated
3 weeks ago