This is a test version of Biostars. For the public version, visit https://www.biostars.org.
Pore-C-Snakemake output files

Hello! I use Pore-C-Snakemake for my analysis. After running this pipeline I am a little bit confused with the output folders. Could anyone guide me to where to find the number of interactions from the list of output folders? https://github.com/nanoporetech/Pore-C-Snakemake.

Thank you, Have a nice day,

contacts
• 560 views • link
updated by zhang yi xing • zhang yi xing • written by oksana03fel • oksana03fel

0 answers

No answers yet.

Log in to answer this question.

More posts like this
  • Pacbio scRNA-seq
    written by SEO • SEO
    Hello! I'm starting an analysis on PacBio scRNA-seq data to examine gene expression differences, but I've been having trouble finding a suitable pipeline or workflow. …
  • Nanopore data filtering using fastp
    written by emilydolivo97 • emilydolivo97
    Hello, I'm running the following command in my terminal: **fastp -i user/nanopore/inputs/ -o user/nanopore/outputs/ -A -G --qualified_quality_phred 10 --reads_to_process 5000 --thread 8** Although I'm specifying …
  • Long cDNA reads identification with Pinfish
    written by wqqgenetics • wqqgenetics
    ![igv snapshot][1] Hi! I'm using Pinfish (https://github.com/nanoporetech/pipeline-pinfish-analysis) to identify transcripts. But I don't know whether the resulting transcripts in the "Merged_polished_transcripts_collapsed.gff" file are dependable? As …
  • Snakemake cluster status script for qsub
    written by blackadder • blackadder
    Hello everyone, I am running a snakemake workflow in my university cluster and after a while I noticed that the pipeline failed to recognize job …
  • Finding Fragment Size chip-seq paired end reads
    written by luckysardar171 • luckysardar171
    Hello currently I am working on Chip-seq analysis i have paired end data 35-130 PE reads I have aligned with bowtie2, after mapping generated the …
  • RNA-SEQ on RICE
    written by Dr SKY • Dr SKY
    Hello , I am a beginner in RNA-Seq analysis. I am particularly working on Rice transcriptome using RNA-Seq pipeline. I have done DESeq2 analysis and …
  • HOMER HiC interactions
    written by srhic • srhic
    Hello, I am using HOMER to analyze my HiC data and looking for significant interactions. I used HOMER to identify significant interactions in my sample …
  • Error with snakemake
    written by Biologist Biologist
    Hi, This was the first time I'm using snakemake to build a pipeline. I got an error while using it. I'm using scripts found in …
  • Algorithms in cwl
    written by vibhu2397 • vibhu2397
    Hi, I am a newbie to CWL and i still am learning how does it work. However, i have a task where i want to …
  • Which Bioinformatic Friendly Pipeline Building Framework?
    written by Carlos Borroto Carlos Borroto
    EDIT: You probably want to take a look at https://github.com/pditommaso/awesome-pipeline Hi, I'm part of a team involve in a project where we will be running …