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readvcfasvranges
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1.1k
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Formal class VRanges versus Large VRanges
somaticsignatures
vranges
readvcfasvranges
7.2 years ago
guillaume.dachy
• 0
1
vote
2
replies
2.1k
views
Trouble while concatenating VRanges object ()
somaticsignatures
somaticsignatures package
readvcfasvranges
vranges
8.2 years ago • updated 8.1 years ago
guillaume.dachy
• 0
2
votes
4
replies
2.6k
views
Best way to create a VRanges object from a large VCF file?
variantannotation
readvcf
readvcfasvranges
vcf
updated 8.8 years ago by
Michael Lawrence
★ 11k • written 8.8 years ago by
ruben.drews
• 0
2
votes
2
replies
1.7k
views
readVCFAsVRanges in VariantAnnotation broken by an FTZ format?
variantannotation
readvcfasvranges
vcf
updated 9.2 years ago by
Michael Lawrence
★ 11k • written 9.2 years ago by
Andy Lynch
▴ 120
0
votes
2
replies
1.5k
views
vcf to vranges
readvcfasvranges
vcf to vranges
updated 9.3 years ago by
Valerie Obenchain
★ 6.8k • written 9.3 years ago by
arsala521
▴ 10
1
vote
2
replies
2.0k
views
Combining GRange/VRange objects
granges
vranges
readvcfasvranges
somaticsignatures
updated 9.6 years ago by
Michael Lawrence
★ 11k • written 9.6 years ago by
jpluta26
• 0
0
votes
4
replies
3.2k
views
How to import vcf with multi sample?
vcf
readvcf
readvcfasvranges
9.8 years ago
Marcin Grzybowski
• 0
4
votes
4
replies
2.6k
views
readVcfAsVRanges + FilterRules
variantannotation
filterVcf
readvcfasvranges
filterRules
updated 10.7 years ago by
Martin Morgan
25k • written 10.7 years ago by
Sigve Nakken
▴ 50
2
votes
3
replies
2.9k
views
Metadata Missing from vcf when reading in with readVcfAsVRanges
variantannotation
vranges
readvcf
readvcfasvranges
metadata
10.7 years ago
summerela
• 0
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Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in
by
James W. MacDonald
68k
Did you use the development version as Aaron suggested? There is an argument to read the market matrix file directly into an `SVT_SparseMat…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in
by
dan.gatti
• 0
Was anyone else able to put the pieces together using the reply above? I read in one 10X sample using DropletUtils::read10xCounts() and thi…
Comment: Announcing GBCC 2025: The first-ever joint conference between Bioconductor and G
by
dzv20413
• 0
Wow, GBCC 2025 sounds amazing, can not wait to see the logo contest results! Also, I just played [Level Devil][1] and it is super addictive…
Comment: Memory error while running alignments
by
Erik Wright
▴ 150
How much memory is available on the computer? A distance matrix of 50k sequences requires at least 50k*50k/2 * 8 bytes = 10GB, assuming the…
Comment: NA values for DESeq2 p-values and adjusted p-values using large sample sizes
by
Gabriel
• 0
Thank you very much for the reply. However, none of these three options seems to fit: 1) The genes for which NA appears do not have all 0 …
Votes
Comment: Check removeBatchEffect effectiveness
Comment: Streamlining the computing time for MiloDE p-value correction in large dataset?
Answer: DESeq2 design for haplotype MPRA
A: Different logFC (log2foldchange) values for genes from limma-voom and other too
Comment: Check removeBatchEffect effectiveness
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