Hanjiangna

Dear 3D-DNA developers, I have noticed that during the correction phase of the 3D-DNA pipeline, certain telomeric segments of contigs are sometimes trimmed. This appears to occur due to the...

Hello Developers, I have been utilizing yahs for Hi-C data processing followed by Juicer's preprocessing pipeline. My command for running yahs was: ```bash yahs /NGS/Fungi/Rc/juicer/references/R0301HifiHicOnt.asm.hic.hap2.p_ctg.fa R0301onthap2.sort.bam -e GATC ``` During...

Does CBNplot Discretize Input VSD Data During Network Construction?

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Hello developers and users, I am deeply intrigued by the process CBNplot employs to construct Bayesian Networks and I am particularly interested in understanding how it handles continuous data. Specifically,...

Hello I'm currently assembling a diploid fungal genome using hifiasm and Hi-C ont hifi data. After analyzing the data with juicer and applying 3d-dna, I've discerned the structure of two...

Dear developer Error reading from the FASTA/Q stream. Minimum return code for left and right read was (-2). code salmon quant -i $IndexDir -p 15 -l A -1 ${CleanDataDir}/${treat}${CleanReads1Suffix} -2...