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GTFS document states:
> If multiple agencies are specified in the feed, each must have the same agency_timezone.
Does this mean that we can't produce GTFS feeds for regions stretching over multi…
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Although we are using the same version of the ensembl gtf files as are used within the ARCHS4 data processing pipeline, there are some genes and transcripts that are not successfully matched up in the…
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http://sangster.github.io/gtfs_engine/
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```shell
cat 2018-01-29/shapes.txt | grep '^11039'
```
```text
11039,53.006660,11.800420,0
11039,53.006180,11.800640,1
11039,53.006050,11.800780,2
11039,53.005970,11.801430,3
11039,53.005840…
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### Feedback
> Currently, there is no GTFS Realtime support in this sensor due to issues surrounding parsing the protocol buffer format in Python 3. Once those issues have been fixed Realtime support…
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```
The routes.txt file in GTFS has a column for route short and route long names.
The converter populates route_short_name and leaves route_long_name empty. It
might be desirable to populate long n…
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```
What steps will reproduce the problem?
1. Parse any GTF file
2. Compare gtf-to-genes start locations to GTF file
3.
What is the expected output? What do you see instead?
Start locations in gtf-to…
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Hello, professor
I am a graduate student studying cfRNA-seq.
First of all, thank you for posting a good pipeline.
I'm writing like this to ask you if you used ercc.fa, ercc.gtf when making ER…
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Dear Mr. Ma :
Thank you for spending so much time answering my questions.
I am still getting errors in the process that using Subread-feature counts to count the values of RNA Seq.
The code a…
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Hello,
when using Pizzly 0.37.3 (SeqAn 2.2.0) and Kallisto 0.43.1 with Ensembl 81 and one gets this error message from Pizzly:
```
Error, could not find any transcript sequences check that the i…