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I thnk that I could model non-methylated Cs as C->T SNPs and Gs as G->A SNPs , but the VCF will be *VERY* large.
Since methylation sequencing is directional, I'll also have to do a second simulatio…
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Dear Shahab,
First of all, many thanks for making this tool available. I really want it to work well because our data should fit the requirements for this method.
I have tried this on my data af…
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Hi, in the graphShort session, is the required input file mitochondrial genome sequencing data or whole genome sequencing data?
I see a warnning:
Warning:` Please note that the SPAdes is not rec…
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Hi, I have a question about how reads are assigned as conflicting, unassignable etc.
I've been trying to use SNPsplit on noisy PacBio long reads to help with haplotype-resolved assembly (which I kn…
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Hi, @EricR86 @mehrankr
Thanks for providing an excellent program for calculating genome mappability. I'd like to inquire about a few questions I've had while running umap here.
1. I'm using the…
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Hi,
I had ~37.8 million Illumina paired end sequencing reads (Plant whole genome with chloroplast and mito genome included). I tried assembling the Chloroplast genome where around 4.39 million read…
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Hi,
I am hoping to perform transcriptome assembly using both nanopore long read sequencing data and illumina short read sequencing data. It appears RATTLE only permits the use of long read sequenci…
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**Describe the bug**
When using `cubi-tk sodar landing-zone-list` only a subset of all landing zones is listed, _i.e._ only ones marked as "ACTIVE". Version 0.4.0
**To Reproduce**
Steps to reprod…
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Hi,
Thank you so much for your effort in developing and maintaining such a wonderful tool!
I am currently working on using WGS sequencing data for CNV calling, but I don’t have any normal samp…
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Thank you for developing this excellent software！
I have 20-30 genomes and about 100 long read ONT data. However, the long reads and genomes are not sequenced from the same individual, but belong to …