User: lauren.fehrman

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Posts by lauren.fehrman

<prev • 9 results • page 1 of 1 • next >
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Color a supplied list of genes a different color on DESeq2 MAplot
... I have a list of genes of interest in a .txt file which are upregulated that I would like to highlight by making a different color in an maPlot. How can I provide this list of genes to the maPlot function and specify that they be colored differently? ...
maplot deseq2 rna-seq written 8 months ago by lauren.fehrman0
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Comment: C: How to get number of exons for each transcript in biomart
... Thank you. This worked perfectly for what I needed to do. ...
written 10 months ago by lauren.fehrman0
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How to get number of exons for each transcript in biomart
... I would like to get a table from ensembl that includes the number of exons for each transcript. I can't find any options that correspond to this on biomart, though. ...
biomart written 10 months ago by lauren.fehrman0 • updated 7 weeks ago by asrmpr0
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Comment: C: How to take sum of cells in a dataframe based on another column
... I have put a hypothetical example below ...
written 2.1 years ago by lauren.fehrman0
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Answer: A: How to take sum of cells in a dataframe based on another column
... My apologies. I didn't realize that the formatting would get so messed up. Essentially, what I a trying to is get the length of all transcripts, given the lengths of their exons. Input: transcript ID length a...................... 2 a...................... 3 a...................... 4 a ..... ...
written 2.1 years ago by lauren.fehrman0
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How to take sum of cells in a dataframe based on another column
... I would like to determine the length of all mRNAs. I have downloaded a bed file of exons and split the column in R so that all exons belonging to the same transcript will have the same character in V4. I have also calculated the length of each exon in V7 exons[c(1:30),] V1 V2 V3 ...
R written 2.1 years ago by lauren.fehrman0 • updated 2.1 years ago by kristoffer.vittingseerup2.9k
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Comment: A: read.table function loss of columns in bed file
... Thanks so much for your help. This worked great! ...
written 2.7 years ago by lauren.fehrman0
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read.table function loss of columns in bed file
... I am trying to read data from a bedfile into R, but I lose the last two columns when the read.table function is applied. ###My bedfile has 6 columns: $ head CHX_clean_sorted_data_plus.bed chr1 630725 630752 SN1052:386:C9VFHACXX:1:1305:11494:98114#RB:GTGCC 50 + chr1 630728 630752 SN105 ...
R read.table written 2.7 years ago by lauren.fehrman0
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How to prepare a table of last exons
... I downloaded a bed file of coding exons from NCBI Table Browser. chr1 67000041 67000051 NM_001308203_cds_1_0_chr1_67000042_f 0 + chr1 67091529 67091593 NM_001308203_cds_2_0_chr1_67091530_f 0 + chr1 67098752 67098777 NM_001308203_cds_3_0_chr1_67098753_f 0 + chr1 67105459 67105516 NM_001308203_cds_4_ ...
R rna-seq awk written 2.7 years ago by lauren.fehrman0 • updated 2.7 years ago by Pierre Lindenbaum124k

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