Showing : InteractionSet • reset
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trying to generate an object from a virtual class ("DataFrame")
InteractionSet BuildReport
10 days ago • updated 9 days ago martin.grigorov • 0
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2
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474
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Converting a GInteractions object to a dataframe
InteractionSet
18 months ago noag • 0
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1
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453
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Resources to learn about s4 object extension/inheritance, custom print methods, and new operations
S4 Rcpp InteractionSet IRanges Rle
updated 2.6 years ago by ★ 28k • written 2.6 years ago by • 0
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1
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422
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How to load counts from existing count matrices in diffHic package
diffHic HiC InteractionSet
updated 2.8 years ago by ★ 28k • written 2.8 years ago by • 0
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2
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Visualizing 4c-seq as arc
genomicinteractions gviz interactionset
updated 4.2 years ago by ▴ 140 • written 4.2 years ago by • 0
2
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Error to rename seqlevels in Granges interactions
interactionset granges
updated 4.6 years ago by ★ 28k • written 4.6 years ago by ▴ 40
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1
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707
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Inflating interactionSets into a contact matrix
diffhic hic interactionset contactmatrix inflate
updated 5.3 years ago by ★ 28k • written 5.3 years ago by ▴ 20
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5
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diffHiC differential HiC analysis starting from Ginteractions object
diffhic interactionset
6.5 years ago Vivek.b ▴ 100
2
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1
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774
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cluster (only one end overlapping) breakpoints using InteractionSet
InteractionSet structural variants
updated 6.5 years ago by ★ 28k • written 6.5 years ago by ▴ 190
9 results • Page 1 of 1
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Comment: mas5calls function doesn't work; mirna40cdf problem by James W. MacDonald 62k
Yes. Follow the recommendation in the link that was provided to you by Lori Shepherd.
Comment: mas5calls function doesn't work; mirna40cdf problem by Berna • 0
Thank you for the information. I did not know that. Would you have a tip how I could proceed differently?
Comment: Correct use of Likelihood Ratio Test and LFC Shrinkage by ayabalbaa1990 • 0
Hi Michael, So I use this res_LRT <- results(dds_lrt) r2=lfcShrink(dds_lrt, coef=7, res=res_LRT) tu run lfcshrink with LRT, is that oko?…
Comment: Combat and dds Object by shaimaa • 0
I used the combat-seq but the deseq complain as its not integer what should i do
Answer: Different summary() and results() values in DeSeq2 by Basti ▴ 540
summary() tells you the number of genes with low counts, see independant filtering of results in the DESeq2 vignette : https://www.biocondu…
Votes
Answer: mas5calls function doesn't work; mirna40cdf problem
Issue with bumphunter and TxDb.Hsapiens.UCSC.hg38.knownGene that could be due to S4Vectors or an installation problem
Strand information in a GAlignmentsList object derived from strand-specific paired-end RNA-seq data
Strand information in a GAlignmentsList object derived from strand-specific paired-end RNA-seq data
A: How to translate FASTA file of DNA sequence to protein sequence using Biostrings
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