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GUIDEseq
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325
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Error in bam loading in getUniqueCleavageEvents() in GUIDEseq package
GUIDEseq
8 months ago
StayM
• 0
0
votes
6
replies
1.4k
views
Option to override removal of duplicate reads - GUIDEseq
GUIDEseq
updated 2.7 years ago by
Julie Zhu
★ 4.3k • written 2.7 years ago by
sharvari gujja
▴ 40
0
votes
1
reply
791
views
GUIDEseq - Error combining individual steps into the pipeline
GUIDEseq
updated 2.9 years ago by
Julie Zhu
★ 4.3k • written 2.9 years ago by
sharvari gujja
▴ 40
0
votes
0
replies
503
views
GUIDEseq - filtering offtarget sites present in background controls
GUIDEseq
2.9 years ago
sharvari gujja
▴ 40
0
votes
0
replies
557
views
GUIDEseq: read count for each offtarget
GUIDEseq
2.9 years ago
sharvari gujja
▴ 40
0
votes
0
replies
658
views
Question about input to binReads.sh in GUIDEseq
GUIDEseq
2.9 years ago
sharvari gujja
▴ 40
3
votes
1
reply
869
views
Major on-target peak not appearing in GUIDEseq results
GUIDEseq
updated 4.1 years ago by
Julie Zhu
★ 4.3k • written 4.1 years ago by
David Kuo
• 0
0
votes
2
replies
1.1k
views
getUniqueCleavageEvents() not working in GUIDEseq package
GUIDEseq
updated 4.2 years ago by
Julie Zhu
★ 4.3k • written 4.2 years ago by
Tiffany
• 0
0
votes
4
replies
1.2k
views
GUIDEseq Error using offTargetAnalysisOfPeakRegions
GUIDEseq
updated 5.3 years ago by
Julie Zhu
★ 4.3k • written 5.3 years ago by
tomas.rodriguez
▴ 10
1
vote
3
replies
1.1k
views
GUIDEseq BED input error
GUIDEseq
5.3 years ago
tomas.rodriguez
▴ 10
0
votes
2
replies
1.2k
views
GUIDEseq Error in GAlignmentPairs
GAlignmentPairs
GUIDEseq
updated 5.6 years ago by
Julie Zhu
★ 4.3k • written 5.6 years ago by
tomas.rodriguez
▴ 10
0
votes
1
reply
868
views
GUIDEseq outputDir error
GUIDEseq
updated 5.6 years ago by
Julie Zhu
★ 4.3k • written 5.6 years ago by
tomas.rodriguez
▴ 10
0
votes
3
replies
1.3k
views
GUIDEseq plus/minus strand inputs
GUIDEseq
updated 5.6 years ago by
Julie Zhu
★ 4.3k • written 5.6 years ago by
tomas.rodriguez
▴ 10
0
votes
1
reply
830
views
GUIDEseq bam input
GUIDEseq
bam
updated 5.6 years ago by
Julie Zhu
★ 4.3k • written 5.6 years ago by
tomas.rodriguez
▴ 10
0
votes
0
replies
1.3k
views
Analyzing CIRCLE-seq data using GUIDEseq package
GUIDEseq
CIRCLE-seq
7.4 years ago
Julie Zhu
★ 4.3k
2
votes
4
replies
1.8k
views
GUIDESeq analysis - handling biological and technical replicates
guideseq
updated 7.6 years ago by
Julie Zhu
★ 4.3k • written 7.6 years ago by
aamir.mir
• 0
2
votes
1
reply
1.3k
views
createBarcodeFasta in GUIDEseq
GUIDEseq
updated 7.6 years ago by
Julie Zhu
★ 4.3k • written 7.6 years ago by
aamir.mir
• 0
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Comment: Design Matrix with paired and independent samples plus RUVg Spike-in normalizati
by
Mei
• 0
I have a similar experiment with 7 paired samples (T0 and T1) in each of 4 outcome groups. I am using RUVr combined with limma-voom, so I a…
Comment: Help with the code for "BiocNeighbors::generic_find_knn() function used by scran
by
Arctic
• 0
Many thanks for the link to the C++ code. I will see if I can find someone with C++ experience to help me with the code breakdown from her…
Answer: Help with the code for "BiocNeighbors::generic_find_knn() function used by scran
by
Aaron Lun
★ 28k
It's calling C++ code, see the relevant function definitions on [GitHub](https://github.com/knncolle/BiocNeighbors/blob/master/src/generics…
Answer: DESeq2
by
ATpoint
★ 4.8k
Time courses are often inevitable batches but you should have done the library prep at the same day, just extract RNA per day. If not then …
Comment: Package developing and interoperation with Bioconductor
by
slizchap
• 0
Thank you so much for your answer. This was very useful, I will optimize my functions so they can handle SE objects.
Votes
Comment: plyranges: find exact GRanges match keeping metadata columns
Answer: Help with the code for "BiocNeighbors::generic_find_knn() function used by scran
Is it possible to speed up VariantAnnotation's rowRanges function when converting to a dataframe?
Answer: Is it possible to speed up VariantAnnotation's rowRanges function when convertin
Comment: ComBat with repeated measures
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