Sean Bresnahan

icon indicating a website link https://seantbresnahan.com

icon location Tulsa, OK icon location Postdoc data scientist at the UT Houston MD Anderson Cancer Center | PhD in Molecular, Cellular and Integrative Biosciences from Penn State

Results 3 issues of Sean Bresnahan

lr-kallisto quant-tcc seg fault with bulk ONT

8 comment

Version: `kallisto 0.51.1` I'm following a workflow outlined in [issue 456](https://github.com/pachterlab/kallisto/issues/456) for using lr-kallisto with bulk ONT. `kallisto bus`, `bustools sort`, and `bustools count` steps complete without errors. However, the...

ERROR in batch_add_transcripts (UNIQUE constraint failed)

Running TALON v6.0 with ONT reads (fastq) aligned to hg38 with minimap2, subset to chr1. TALON run succeeds up until it starts calling `batch_add_transcripts`, at which point it exits with...

Terminated following "KeyboardInterrupt"

Running with 12 threads following basic usage example in README.md ``` Traceback (most recent call last): File "/rsrch5/home/epi/bhattacharya_lab/software/longreadapps/TranscriptClean_venv/bin/transcriptclean", line 33, in sys.exit(load_entry_point('TranscriptClean', 'console_scripts', 'transcriptclean')()) File "/rsrch5/home/epi/bhattacharya_lab/software/longreadapps/TranscriptClean_venv/TranscriptClean-master/TranscriptClean/TranscriptClean.py", line 37, in main...