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
6.6 years ago ktehmsen • 0
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1.8k
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How to find multiple overlaps with pairwiseAlignment()?
biostrings pairwisealignment
updated 7.1 years ago by 16k • written 7.1 years ago by ▴ 10
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1.8k
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Query with Biostrings pairwise alignment output positon
biostrings alignment pairwisealignment
updated 7.3 years ago by 16k • written 7.3 years ago by • 0
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4.1k
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Calculate the number of SNP differences between sequences in multiple alignment
pairwisealignment SNP dnasequence
8.1 years ago lordbleys • 0
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1.2k
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Translate to aminoacid, align pairwise and un-translate back to DNA
translation pairwisealignment
8.6 years ago igferres • 0
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1.1k
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Mapping sequence features to alignments
pairwisealignment indel
updated 8.7 years ago by 16k • written 8.7 years ago by ▴ 10
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1.7k
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pairwiseAlignments coordinate mapping?
biostrings pairwisealignment
updated 8.8 years ago by 16k • written 8.8 years ago by ★ 13k
2
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1
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1.3k
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Error in score() function on pairwiseAlignment()
biostrings pairwisealignment
updated 8.9 years ago by 4.1k • written 8.9 years ago by • 0
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1.5k
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pairwiseAlignment() - Similarity NA% ?
biostrings pairwisealignment
updated 9.4 years ago by 16k • written 9.4 years ago by • 0
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3
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1.4k
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indels located at the edges of subject and Biostrings pairwiseAlignment function
pairwisealignment biostrings
9.5 years ago vincent.plagnol ▴ 10
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inconsistent pairwiseAlignment behaviour (Biostrings) with multiple alignments with identical scores
biostrings pairwisealignment
9.5 years ago vincent.plagnol ▴ 10
4
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5
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3.2k
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global alignment in Biostrings , Memory fails when seq. lengths around 50K bp
Biostrings pairwiseAlignment
updated 10.3 years ago by 16k • written 10.4 years ago by ▴ 120
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Answer: Use of org.Rn.eg.db with GRCr8 reference genome by James W. MacDonald 68k
You've got it backwards. It should be ``` adult_res_df$symbol <- mapIds(org.Rn.eg.db, keys = rownames(adult_res_df), column = "ENSEMBL"…
Comment: DESeq2 swap ensembl gene id rownames with gene symbol column by Erika • 0
Alternatively, you could have added a column with the common gene names. Assuming your dataframe `df` was created using `DESeq()`, somethin…
Answer: Clarification on GOALL / GO2ALLORFs mapping by James W. MacDonald 68k
It appears that 'negative regulation of glycogen biosynthesis' has an 'is a' relationship with 'glycogen biosynthetic process' https://www.…
Comment: Can't post a question? by DavideSant • 0
Thank you, this was super useful!
Comment: Error in retrieving clinical data by silickas • 0
Thank you for the reply. I will try to do that next time. This time instead, I used the GenomicDataCommons package to download clinical dat…
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Comment: Can't post a question?
Answer: Limma - Complex 2-way multi-level contrast with paired samples
Answer: [ChIP-seq] DESeq2 on counts matrix from union set of called peaks
Help with creation of an OrgDB package and conduction of a bioinformatical analysis of gene expression
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