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Hi,
For the Hi-C data mapping, is there a way to output multi-mapped reads (bolded in the log below) separately? Or is there a way to extract _only_ multi-mapped reads from the .pairs file? Thank y…
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To better keep in sync the versions of the multi-accumulation (MA) tables used by various simulation tools at the SOC as well as by the romancal pipeline, we request a new type of reference file to ca…
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The idealised view of a di-tag is not always correct, for a paired end-read may comprise components from not just two, but rather multiple regions of a genome. We have made steps to address this in a…
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Hi,
I'm using HISAT2 to align ribosomal profiling reads (25-35nt) to a human reference. I'm getting a very large proportion of multi-mapping reads. On average, only ~7% of mapped reads were unique …
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### Describe the feature
Kruize reads CPU & memory usage data from the provided data source and comes up with the CPU and Memory right sizing recommendation. In a similar way it would be good to h…
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Hi there,
I am using `bambu 3.4.0` for quantification. I am curious about the read to transcript assignment, so I used the function mentioned in the document `metadata(se)$readToTranscriptMaps[[1…
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Hi Alex,
I have four reads (instead of two reads R1 and R2) per sample. How can I map them?
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It seems that MultiBroadcastFusion is not fusing reads/writes in ClimaCore. Perhaps the compiler is unable to perform the optimization (these are pretty complicated expressions afterall). If the compi…
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Hi there,
I'm encountering some errors when running CellRanger with the data you provided, specifically the sample labeled 'FCA_GND8103053'. It's worth noting that I've tested the process with othe…
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I attempted to analyze BCR sequencing data generated using the GEXSCOPE® Single-Cell Immune Receptor Library Construction Kit with the multi_vdj_full_len tool. However, I encountered an error during t…