Showing : InteractionSet • reset
1
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12
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1.3k
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How to calculate p value when comparing two sets of DEGs and not applying interaction
DEGcomparison DESeq2 InteractionSet pvalue
5 months ago paria.alipour • 0
0
votes
3
replies
783
views
Cannot use findOverlaps with 2 GInteractions objects with different ranges.
InteractionSet GInteractions
6 months ago Sarah ▴ 10
1
vote
0
replies
555
views
subsetByOverlaps in GenomicInteractions object doesn't work properly?
InteractionSet subsetByOverlaps GenomicInteractions
12 months ago LaureTomas ▴ 10
0
votes
3
replies
888
views
trying to generate an object from a virtual class ("DataFrame")
InteractionSet BuildReport
18 months ago martin.grigorov ▴ 10
0
votes
2
replies
1.2k
views
Converting a GInteractions object to a dataframe
InteractionSet
3.0 years ago noag • 0
0
votes
1
reply
962
views
Resources to learn about s4 object extension/inheritance, custom print methods, and new operations
S4 Rcpp InteractionSet IRanges Rle
updated 4.1 years ago by ★ 28k • written 4.1 years ago by • 0
0
votes
1
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907
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How to load counts from existing count matrices in diffHic package
diffHic HiC InteractionSet
updated 4.2 years ago by ★ 28k • written 4.2 years ago by • 0
0
votes
2
replies
1.3k
views
Visualizing 4c-seq as arc
genomicinteractions gviz interactionset
updated 5.6 years ago by ▴ 140 • written 5.6 years ago by • 0
2
votes
1
reply
1.3k
views
Error to rename seqlevels in Granges interactions
interactionset granges
updated 6.1 years ago by ★ 28k • written 6.1 years ago by ▴ 40
2
votes
1
reply
1.3k
views
Inflating interactionSets into a contact matrix
diffhic hic interactionset contactmatrix inflate
updated 6.7 years ago by ★ 28k • written 6.7 years ago by ▴ 20
1
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5
replies
1.4k
views
diffHiC differential HiC analysis starting from Ginteractions object
diffhic interactionset
8.0 years ago Vivek.b ▴ 100
2
votes
1
reply
1.1k
views
cluster (only one end overlapping) breakpoints using InteractionSet
InteractionSet structural variants
updated 8.0 years ago by ★ 28k • written 8.0 years ago by ▴ 190
12 results • Page 1 of 1
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Comment: 'path' must be string by James W. MacDonald 66k
Yes. We already knew that from the error message, and I told you that in my previous email. The point wasn't to figure out *where* the err…
Comment: 'path' must be string by cpierce2 • 0
I ran the debugger and this is the line that causes the error: ``` if (any(startsWith(pkcData[["RTS_ID"]][1L], "RTS")) & any(startsWith(pr…
Comment: Generating surrogate variables across multiple variables of interest by Robert • 0
Yes, we have several biomarkers, and a proteomic set, so we are characterizing each biomarker by it's proteomic association(s). The use for…
Comment: Error running tximeta by Guido Hooiveld ★ 4.0k
FYI (since I just finalized a run with `salmon`). For each sample (`.`) an output folder is created that contains 3 files (`cmd_info.json`…
Comment: Error running tximeta by Michael Love 42k
Tximeta uses the full directory. There are files that give the key information about the transcriptome. It's not a good idea to selectively…
Votes
Question: Deconvolution Methods on RNA-Seq Data (Mixed cell types)
Answer: Understanding how to contrast two treatments in DESeq2
Answer: Understanding how to contrast two treatments in DESeq2
Cannot extract TxFeatures for a defined GRanges object
Limma time series spline help
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