Taek Wizard

Thank you for responding. 1. PacBio HiFi & ONT: Sorting this out would indeed be fantastic, but I acknowledge it poses a challenge. I'll need to give it some thought....

Thank you for your reply. I have tried again as you suggested. conda activate samplot samplot vcf --filter "SVTYPE == 'DEL' & SU >= 8" --filter "SVTYPE == 'INV' &...

Here is the second trial. conda activate samplot samplot vcf --filter "SVTYPE == 'DEL' & SU >= 8" --filter "SVTYPE == 'INV' & SU >= 5" --vcf /work/CTSV.vcf -d LCTSV...

Here is the third trial. conda activate samplot samplot vcf --filter "SVTYPE == 'DEL' & SU >= 8" --filter "SVTYPE == 'INV' & SU >= 5" --vcf /work/CTSV.vcf -d LCTSV...

Thank you for your excellent program and explanation. As I delved deeper into the details, I fortunately identified the issue. If it's okay, I have a few questions for clarification....

Thank you for your prompt response. To provide additional clarification: During re-basecalling of ONT Ultra-Long reads (via buttery-eel), I utilized the following settings for adapter removal: --detect_mid_strand_adapter --trim_adapters --detect_adapter --do_read_splitting...

Thank you for your response. I'm interested in utilizing your program, sequali. Upon reviewing the "--adapter-file," I couldn't locate the "Rapid Adapter (RA) used in the ultra-long sequencing kit (SQK-ULK114)"...

Hi @diego-rt, Appreciate your insights. After experimenting, the current pipeline (Buttery-eel + Guppy or Dorado) seems effective for ONT data. For removing any remaining Rapid Adapter (RA) sequences, I employed...

Thank you for your insights. I wanted to share that I've been exploring the Butterry-eel pipeline, integrated with Guppy and Dorado, and have found its features quite impressive. Its capabilities,...

Hi again, Adding to the previous post, I might have managed to install it. However, there is an error. Is it normal? (PipCmakeToxSnakeM) XXXXX@flashlite2:~/miniconda3/envs/Pore-C-Snakemake> conda activate pore-c-snakemake (pore-c-snakemake) XXXXX@flashlite2:~/miniconda3/envs/Pore-C-Snakemake> snakemake...