issues
search
rnabioco
/
raer
Characterize A-to-I RNA editing in bulk and single-cell RNA sequencing experiments
https://rnabioco.github.io/raer/
Other
7
stars
2
forks
source link
issues
Newest
Newest
Most commented
Recently updated
Oldest
Least commented
Least recently updated
add sample rse data
#71
jayhesselberth
closed
1 year ago
2
variant filters and making RangedSummarizedExperiment default return from get_pileup
#70
kriemo
closed
1 year ago
0
rsamtools devel version not needed
#69
kriemo
closed
1 year ago
0
activate test coverage reporting
#68
jayhesselberth
closed
1 year ago
0
feedback from filter functions
#67
jayhesselberth
closed
1 year ago
0
Consistent naming for pileup functions
#66
jayhesselberth
closed
1 year ago
0
simplify readme
#65
jayhesselberth
closed
1 year ago
0
Consistent naming for filtering functions
#64
jayhesselberth
closed
1 year ago
0
new package logo
#63
jayhesselberth
closed
1 year ago
0
updated single cell processing
#62
kriemo
closed
1 year ago
1
speed up `remove_multiallelic()`
#61
jayhesselberth
closed
1 year ago
0
speed up `remove_multiallelic()`?
#60
jayhesselberth
closed
1 year ago
1
GR output columns
#59
jayhesselberth
closed
1 year ago
1
implement progress bar for pileup
#58
jayhesselberth
closed
1 year ago
4
add option to collapse reads with duplicate UMIs
#57
kriemo
closed
1 year ago
0
internal function for specialized bam sort
#56
jayhesselberth
closed
1 year ago
3
fix a few memory issues
#55
kriemo
closed
1 year ago
0
filter sites based on number of variants.
#54
kriemo
closed
1 year ago
0
provide diagram of data processing workflow
#53
kriemo
closed
3 months ago
4
fix performance regression
#52
kriemo
closed
1 year ago
0
use RcppEigen
#51
jayhesselberth
closed
1 year ago
0
additional analysis for main vignette
#50
jayhesselberth
closed
1 year ago
0
add progress bar for get_pileup()
#49
jayhesselberth
closed
1 year ago
2
Report failed reads
#48
kriemo
closed
1 year ago
1
detect splice overhang
#47
kriemo
closed
2 years ago
0
updates to single cell processing
#46
kriemo
closed
2 years ago
0
Updates to single cell processing
#45
kriemo
closed
2 years ago
0
Add notes on how to get to BAM
#44
jayhesselberth
closed
1 year ago
0
pkgdown build
#43
jayhesselberth
closed
2 years ago
0
rework pileup to by default store results in memory.
#42
kriemo
closed
2 years ago
0
updates for single cell processing
#41
kriemo
closed
2 years ago
0
Test indexing approach
#40
kriemo
closed
2 years ago
0
add a novel site detection vignette
#39
kriemo
closed
2 years ago
0
add per read base quality filter
#38
kriemo
closed
2 years ago
0
Implement raer_example()
#37
jayhesselberth
closed
2 years ago
1
check compatibilty with older rhtslib
#36
kriemo
closed
2 years ago
1
Parallel processing
#35
kriemo
closed
2 years ago
0
rework pileup to work with n files
#34
kriemo
closed
2 years ago
0
add mismatch filter and change trim options to trim based on alignmen…
#33
kriemo
closed
2 years ago
0
bam -> fasta
#32
kriemo
closed
2 years ago
0
Write reads with variants, more tests, optionally exclude non-variant positions
#31
kriemo
closed
2 years ago
0
Differential editing
#30
kwells4
closed
2 years ago
0
add reporting of variant alleles (related to #26)
#29
kriemo
closed
2 years ago
0
Differential editing
#28
kwells4
closed
2 years ago
0
report # of reads excluded from positions
#27
kriemo
closed
1 year ago
0
add options to filter for specific variants in pileup
#26
kriemo
closed
2 years ago
0
Read level artifacts
#25
kriemo
closed
2 years ago
0
reorg to process 2 (or more) bam files
#24
kriemo
closed
2 years ago
0
get_pileup width calculation
#23
sheridar
closed
2 years ago
1
Tests
#22
sheridar
closed
2 years ago
2
Previous
Next