Skip to content
Snippets Groups Projects

adding cDNA generation script

Closed Suvarnan Selliah requested to merge suvi into main

solving #5

Merge request reports

Loading
Loading

Activity

Filter activity
  • Approvals
  • Assignees & reviewers
  • Comments (from bots)
  • Comments (from users)
  • Commits & branches
  • Edits
  • Labels
  • Lock status
  • Mentions
  • Merge request status
  • Tracking
  • Suvarnan Selliah requested review from @zavolan

    requested review from @zavolan

    1. I read the transcript ID and transcript sequence from fasta-file
    2. search in gtf-file for transcript ID to find all priming sites for that transcript
    3. search in csv-file for transcript ID to find the count of transcript
    4. create cDNAs: loop over the counts of a given transcript, select a priming site in proportion to their relative probabilities and generate the DNA that starts at the transcript start and ends at the chosen priming site 5a. write output fasta-file: cDNA ID and cDNA sequence 5b. write output csv-file: "cDNA ID, Gene ID, Count of cDNA"
    Edited by MihaelaZavolan
Please register or sign in to reply
Loading