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Hi, thank you for developing this amazing tool.
I used 9 long-read RNA-seq samples togather to generate a gtf file and I am very interested in a novel transcript (transcript32428.chr19.nic). When …
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There is a bus stop at 12th/Harrison Outbound and Inbound. Only outbound stop is associated with route 3B in the GTFS file.
Looked in the GTFS data and discovered it is stop **785978** with the nam…
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In my RNAseq there's a novel isoform (extended exon) which is not detected by ESPRESSO. (See BAM file with ESPRESSO gtf below). Only two reads are visible supporting the isoform, but there are actuall…
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Options:
* `parse_gtf_attributes` as read_gtf() with an option to parse
* wrap an existing external tool for gtf parsing and return a pandas dataframe
* keep it as a separate operation to apply to an…
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Hi
I have two sets of input data, one from Nanopore and the other from PacBio. Could you please advise on the ‘--data_type’ parameter? Should I choose ‘pacbio_ccs’ or ‘nanopore’? My goal is to obtain…
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### Ask away!
How would you recommend implementing the StringTie --mix parameter in the pipeline? (To use both short and long reads). I have the pipeline working on the cluster normally. I am wonderi…
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I tried Importing a GTFS File (Generated Previously by Same GTFS Manager).But It shows **500: Internal Server Error**
Attaching the screenshots
![image](https://user-images.githubusercontent.com/1…
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@hfu created a single PMTiles file created from all active GTFS data from Mobility Database Catalog from Mobility Data.
- [Source Cooperative repo](https://beta.source.coop/repositories/smartmaps/m…
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Hi,
building on your nifty library I implemented some GTFS editing capabilities in https://github.com/ait-energy/gtfs-fiddler/. Quoting the README:
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1. Add additional trips
- Earliest …
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Good evening,
I would like to use the GFF compare for comparing two gtf files generated from long-read sequencing. However, part of the duplicate query transfrags discarded, and I can not find a way…