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Dear authors of Remora,
I am trying to extract features from basecalls (io_read.seq), reference sequence (io_read.ref_seq) and signals from the io_read object generated from pod5 and bam.
I am c…
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Hello Florian,
in the description of the output table you say "intronic reads are not considered (as they would bias the NTR)". However, I split my bams in reads mapping on exons and reads mapping …
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I am currently using Bismark to analyze DNA methylation data from root/nodule samples from a legume plant species and am facing issues regarding multi-mapping reads and low mapping efficiencies.
My P…
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Hi, I´m trying to use polyconvert to generate TAZ definition from a shapefile.
The shapefile was generate using EPSG:4326
I´m passing the network as parameter too, so polyconvert calculate de pr…
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Hello,
I've been mapping paired end reads to a graph built with minigraph-cactus
```
vg giraffe --progress --fragment-mean $frag_mean --fragment-stdev $frag_stdev -Z ${inDir}/arenosa_pg.d2.gbz …
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Hello,
thank you for your awesome tool.
I am trying to run it ony my samples from RNA-Seq (150bp PE).
I have reads already trimmed adapters with fastp.
I am curious if "reads that failed to alig…
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Hello @rrwick,
I experienced some poor mapping performance with Minimap2 for reads simulated using the pacbio2016 (only changing depth, mean sequence identity, all other settings as default). I notic…
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Hello,
I have to write a custom encoder from Protobuf to something else. I've noticed that the Visitor protocol is public so I was planning to create a custom Visitor that will do the encoding.
…
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it appears gnumap doesn't do paired reads. need to add this support.
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Does Flex2 have static mapping support? S1-S3K have some objects in this format and Flex2 cannot open them
We also actively use static mappings for our objects and we don't have the opportunity to …