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### Description of feature
Hi,
we are storing our sequencing data in spring-format to reduce disc space. Do you plan to support spring-format besides fastq for sequencing reads in the near future?
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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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My problem is that I am having difficulty obtaining a list of variants using bcftools mpileup and bcftools call with PacBio data. I do not have this problem with data of Illumina paired-end sequencing…
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We got back 150 bp read data from NovoGene from the SATAY experiments. Based on a manual inspection of the data, we see that:
- Each read also contains the sequence of the primers used for amplific…
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Hello, I'd like to use your Replication_timing_segmenter.R to call replication timing segments using data available from Encode. If you aren't familiar with that data, each cell type comes with G1, G2…
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Hi! Thanks for providing a python-based version of CARLIN pipeline. We want to modify the arguments to run on our own sequencing data and reference from a different experiment protocol. However, I can…
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For first round of integration testing with Kids First, we need the priority 1 fields from sequencing (and maybe 2). These fields include:
### Priority 1
seq_filename
analyte_type
sequencing_…
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Issue by @MaxUlysse, moved from SciLifeLab#666
- [ ] [ExpansionHunter](https://github.com/Illumina/ExpansionHunter) for estimating repeat sizes
- [ ] [QDNAseq](https://github.com/ccagc/QDNAseq) CN…
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HI! I'm having a problem with the cellScann module, in particular I can't understand the reason for this error:
INFO Monopogen.py Get single cell level information from sequencing data...
INFO:_…
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Datasets where the truth is know...
for automated testing and evaluation of workflows
It will be possible to use the ENA for that (which reflects most but not all of the diversity of sequencing …