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## Summary
MiXCR performs an alignment as well as an assembly step during its process of identifying clonotypes. During assembly, a clustering method is utilized to attempt to overcome PCR and sequen…
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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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I am trying to use your software GI-cluster to help identify genomic Islands in my genomes. I notice when it runs the r program it get stuck on “cluster assignment” for a long time.
Can you help m…
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# Meeting with Stuart
He is suggesting a tradeoff between making volatiles and the leaf size, in the case of males. Repro unit and some clusters. Total amount of carbon produced by those clusters, …
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Dear cerebis,
I am having a similar problem. I managed to generate the contact map but it's 58 Mb and when I run it in virtualbox (ubuntu) I got the same error: MemoryError.
Could you specify how…
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Hello, Zeng：
Sort and locate the HIC heatmap using the reference genome:
（1）minimap2 -x asm20 -N 1 -t 30 ref.fa *.p_ctg.fasta -o asm_to_ref.paf
（2）haphic refsort ../scaffolds.raw.agp asm_to_ref.paf…
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Hello!
I'm new in the field and I need to use Chewbbaca In the end of the analysis, I get in a visualization folder, a file, cgMLST.tsv. Is the values in this file represent the allele distance of e…
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>hundreds or thousands of “extra” genes per genome,
but black box is black box
1)
for example
PGAP report 434 genes on plasmid
https://www.ncbi.nlm.nih.gov/protein?LinkName=nuccore_protein&fr…
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I ran through the [vignette](https://caleblareau.github.io/gchromVAR/articles/gchromVAR_vignette.html) using my scATAC-seq data for the peaks, and I downloaded a fine-mapped posterior-probabilities fo…
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Hello,
I am using LinkedSV on 10X Genomics linked-reads sequencing generated bam file with following command:
python linkedsv.py -i phased_possorted_bam.bam -d . -r hg38.fa -v hg38 -t 20 --germlin…