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Hello!
I wanted to express my gratitude for developing such excellent software! I recently assembled diploid haplotypes using pacbio hifi data, ont ultra long data, and hic data. I ran separate mer…
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#### Are you using the latest version of [samtools]
samtools 1.19
#### Please describe your environment.
-Linux 6.5.0-35-generic
-x86_64
-gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
#### Plea…
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### Description of bug
(bio) zhisong@zhisongs-MacBook-Air spades % bin/spades.py -s ../accuvirnew/bad_nano/hiv_50_2k.fastq -o testfasta --isolate
== Error == /Users/zhisong/Desktop/accuvirnew/b…
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I have been looking at this paper using miniBarcode:
Srivathsan *et al.* (2019) Rapid, large-scale species discovery in hyperdiverse taxa using 1D MinION sequencing
https://doi.org/10.1186/s12915-…
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Hi Levi and Marcel,
I was wondering if it would be possible to implement a simplified methylation data set. As you know the raw methylation data is quite unwieldy so I condensed it to a matrix, whe…
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I have no problems running this using BPM, however, when using an Illumina provided manifest (.csv) it is missing the RefStrand header. These are the headers that were provided, can you tell me which…
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Depending on what data is available at any moment, we may need to perform analysis with only short (illumina) reads, only long (Oxford Nanopore aka ONT) reads, or a hybrid analysis using both short an…
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Hi,
Thank you for developing this tool. It has been very helpful. I have samples sequenced using both Illumina (>100X coverage) and ONT (~20X coverage). I'm wondering how to provide both the bam fi…
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I have PACBIO SMRT Sequel data - and both Hi-C and Chicago Illumina data - but no standard PE or matepair Illumina data. Would you recommend using NextPolish with just the PacBio data - or would it b…
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Hi
Thanks for a great method.
I'm working on chromosome contact data generated from a long read sequencing method. Check link here if interested:
https://www.biorxiv.org/content/10.1101/833590v1…