hasindu2008 / f5c

Ultra-fast methylation calling and event alignment tool for nanopore sequencing data (supports CUDA acceleration)

https://hasindu2008.github.io/f5c/docs/overview

hasindu2008/f5c Issues

Error concerning conflict of run-ids in multi-fast5 file
Closed a month ago
Default parameters used in Event detection function
Closed a month ago9
[Request] An option to filter out signal spikes
Closed a month ago6
Error during eventalign: Read ID 'X' was not found. Slow5 record will be skipped.
Closed a month ago5
f5c eventalign out of memory message
Updated a month ago10
Difference between f5c eventalign and resquiggle, event segmentation with resquiggle
Updated a month ago4
get 5mer output with R10 data
Closed a month ago4
slow5 index create error during eventalign
Closed a month ago11
No alignments after call methylation
Closed a month ago6
RNA004 9-mer model
Closed a month ago2
methylation calling is not supported for RNA data
Closed a month ago2
f5C Resquiggle Memory Problems
Closed a month ago7
When doing f5c call-methylation, the quality of dorado basecaller's reads was significantly lower than that of guppy basecaller's reads
Closed a month ago4
Bad fast5 warning . How to I fix ? code I run and output attached ( r10 chemistry)
Closed a month ago11
Memory problem of f5c v1.4
Closed 2 months ago11
pod5 support instead of fast5
Closed 4 months ago6
How to interpret the 'NNNNN' in the 'model_kmer' column of eventalign?
Closed 4 months ago1
f5c error for m6anet
Closed 4 months ago13
Some questions about f5c
Closed 6 months ago14
Using nanopolish polyA with f5c index error
Closed 5 months ago4
f5c index : num reads and num reads with path to fast5 don't match
Closed 6 months ago6
f5c support to event align for R10.4.1 RNA data?
Closed 7 months ago2
f5C eventalign with Guppy-called base modifications
Closed 8 months ago6
Other kmer models for R10.
Closed 8 months ago7
f5c v1.2 to run the eventalign in R10 data
Closed 8 months ago6
no alignment in most reads
Closed 8 months ago29
Generation of r9.4_450bps.cpg.6mer.template.model
Closed 8 months ago4
Can f5c eventalign using nanopolish index?
Closed 8 months ago11
question about methylation detection
Closed 10 months ago8
No GpC methylation calling?
Closed 10 months ago4
Unexpected segmentation fault
Closed a year ago3
Identifying positive/negative strand mapping from eventalign
Closed a year ago12
Error Running Call Methylation
Closed a year ago6
Scale-events option info
Closed a year ago7
genomic coordinate of dRNA eventalign
Closed a year ago5
recommended threshold for the log likelihood ratio
Updated a year ago4
resquiggle
Closed a year ago4
mC in other motifs and R10
Closed a year ago10
few sites from LSK114
Closed a year ago7
f5c index error in snakemake
Closed a year ago10
Graphmap2 compatibility
Closed a year ago5
ERROR in f5c eventalign
Closed a year ago31
avoid skip when using f5c eventalign
Closed a year ago8
Empty bam and tsv file with f5c methylation calling
Closed a year ago5
resquiggle in f5c
Closed a year ago1
Error in eventalign
Closed a year ago5
f5c index
Closed a year ago11
Compiling on a Macbook Pro M1 fails
Closed 2 years ago9
Meth-freq treshold issue
Closed 2 years ago3
How to make f5c work inside a nextflow pipeline?
Closed 2 years ago4