User: Palgrave

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Palgrave20
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Posts by Palgrave

<prev • 19 results • page 1 of 2 • next >
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Comment: C: Align two fasta files against each other
... I have two large files containing about 10000 fasta sequences. I would like to output one alignment for each sequence in File1. I guess command line blast is better? What parameters should I use? ...
written 25 days ago by Palgrave20
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Comment: A: Find 3'UTRs for species
... Are you sure? Ensembl Genes Genomic Sequence Sequence Retrieval Region Options: Promoter/Upstream by bases 5' UTR Exons CDS Exons 3' UTR Exons Introns Downstream by bases One FASTA record per gene. One FASTA record per region (exon, intron, etc.) wi ...
written 25 days ago by Palgrave20
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Align two fasta files against each other
... I have two files File1.fa and File2.fa that I would like to align against each other. I would like to print only the alignment result for File1 and leave a gap (-) where File1 does not align to File2. Which tools and parameters would you choose? ...
alignment written 25 days ago by Palgrave20
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Comment: C: Find 3'UTRs for species
... Sorry, I did not see that. So I can also the the 3utr sequence by choosing output format=sequence? ...
written 25 days ago by Palgrave20
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Comment: A: Find 3'UTRs for species
... Hi, I am not analyzing human sample, but a rare fish species ...
written 25 days ago by Palgrave20
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Find 3'UTRs for species
... I have a fasta assembly for a fish species that is not very well characterized, regarding UTRs. Using this fasta I would like to find putative 3'UTR sequences by aligning to a closely related fish species, zebrafish, using the UTRs of zebrafish. How would you approach this to get a set of 3'UTRs t ...
assembly forum alignment written 25 days ago by Palgrave20
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Comment: C: Expression Matrix And Pearson'S Correlation Coefficient
... Did you make an R script for this? Do you mind sharing it? ...
written 3.6 years ago by Palgrave20
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Comment: C: Survival analysis of TCGA patients integrating gene expression (RNASeq) data
... Would you mind helping, I tried but got errors ...
written 3.6 years ago by Palgrave20
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Comment: C: Kaplan Meier curves in R
... These are miRNA expression data and it seems to be some effects allready.   ...
written 3.6 years ago by Palgrave20
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Comment: C: Survival analysis of TCGA patients integrating gene expression (RNASeq) data
... Is it possible to run through all my rownames and print all corresponding plots and p-values: ind_gene <- which(rownames(z_rna) == "TP53") ...
written 3.6 years ago by Palgrave20

Latest awards to Palgrave

Popular Question 3.6 years ago, created a question with more than 1,000 views. For miRNA isomiR analysis using Biostrings
Popular Question 3.6 years ago, created a question with more than 1,000 views. For Kaplan Meier curves in R
Popular Question 3.6 years ago, created a question with more than 1,000 views. For Correlation between two expression matrices in blood and tumor

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