Showing : pairwisealignment • reset
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Question about converting SAM alignment file data to a visual text alignment (e.g., resembling blastn alignment)
SAM samtools pairwisealignment alignment blastn
7.3 years ago ktehmsen • 0
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3
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2.0k
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How to find multiple overlaps with pairwiseAlignment()?
biostrings pairwisealignment
updated 7.9 years ago by 16k • written 7.9 years ago by ▴ 10
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4
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2.0k
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Query with Biostrings pairwise alignment output positon
biostrings alignment pairwisealignment
updated 8.0 years ago by 16k • written 8.0 years ago by • 0
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2
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4.4k
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Calculate the number of SNP differences between sequences in multiple alignment
pairwisealignment SNP dnasequence
8.8 years ago lordbleys • 0
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1.5k
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Translate to aminoacid, align pairwise and un-translate back to DNA
translation pairwisealignment
9.3 years ago igferres • 0
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1
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1.2k
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Mapping sequence features to alignments
pairwisealignment indel
updated 9.4 years ago by 16k • written 9.5 years ago by ▴ 10
3
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3
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2.4k
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pairwiseAlignments coordinate mapping?
biostrings pairwisealignment
updated 7 months ago by ▴ 20 • written 9.6 years ago by ★ 13k
2
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1
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1.4k
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Error in score() function on pairwiseAlignment()
biostrings pairwisealignment
updated 9.6 years ago by 4.2k • written 9.6 years ago by • 0
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1.6k
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pairwiseAlignment() - Similarity NA% ?
biostrings pairwisealignment
updated 10.2 years ago by 16k • written 10.2 years ago by • 0
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3
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1.6k
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indels located at the edges of subject and Biostrings pairwiseAlignment function
pairwisealignment biostrings
10.2 years ago vincent.plagnol ▴ 10
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inconsistent pairwiseAlignment behaviour (Biostrings) with multiple alignments with identical scores
biostrings pairwisealignment
10.2 years ago vincent.plagnol ▴ 10
4
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5
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3.5k
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global alignment in Biostrings , Memory fails when seq. lengths around 50K bp
Biostrings pairwiseAlignment
updated 11.1 years ago by 16k • written 11.1 years ago by ▴ 120
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Answer: NUPOP usage by shepherl 4.2k
You should read the documentation in the package especially the package vignette https://bioconductor.org/packages/release/bioc/html/NuPoP.…
Comment: How can I correctly use phyloseq with Docker? by fnfgame • 0
In a rocker image, this error usually means the Bioconductor install happened as root but the runtime library paths used by the shiny user …
Comment: DECIPHER DesignProbes unable to design FISH-probes by Erik Wright ▴ 150
Are the sequences aligned (i.e., the same width) before running `TileSeqs()`?
Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Michael Love 43k
BTW, I tested with no issue on MacOS ARM on our previous github issue.
Answer: DESeq(dds, parallel=TRUE) wrong args for environment subassignment by Michael Love 43k
The DESeq2 error makes sense, as we've talked about, given that the simple `bplapply` isn't working in your setup. Maybe give the traceb…
Votes
C: DESeq2 Following RSEM
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
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