Extracting data from column of data set

General
1

I have a dataset called ITS_counts2. I have found which rows I need to extract and called this ids5 (i.e. row 52...row240... etc). I Have used the following code to try and extract the sequences corresponding to these rows (sequence is a column in ITS_counts2).
seqs5=ITS_counts2[ids5, "sequence"]
seqs5

When I use this code, it gives me output
[1] "AACGCACATTGCGCCCCTTGGTATTCCATGGGGCATGCCTGTTCGAGCGTCATTTGAACCCTCAAGCTCTGCTTGGTGTTGGGTGTTTGTCCCGCCATTTGCGCGTGGACTCGCCTTAAAGCAATTGGCAGCCATGTAATCCGGCTTTGAGCGCAGCACATTGCGTACTCTCTACTGGTACATTGGCATCCAGAAGCCCATTTTTTACTCTTGACCTCGGATCAGGTAGGGATACCCGCTGAACTTAAGCATATCAATAAGCGGAGGA"
[2] "AACGCACATTGCGCCCCTTGGTATTCCGGGGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCACTGCTTGGTCTTGGGCCGCGCCGGCGACGGCGGGTCTCAAACGTAGTGGCGGCACCATCGGTTCCCTCAGTGTAGTAATATCTCTCGCTGCTGGGCTGCGGTGGCTGCTAGCCAGTAACCCCTAATTTTCTCTGGTTGACCTCGGATCAGGTAGGGATACCCGCTGAACTTAAGCATATCAATAAGCGGAGGA"
[3] "AACGCACATTGCGCCCCTTGGTATTCCGAGGGGCATGCCTGTTCGAGCGTCATTATAACCTCTCAAGCTCAAGCTTGGTATTGGGGCCTGCTGCACCGGCAGCCCTTAAAATCAGTGGCGGTGCTATCTGGCTCTAAGCGTAGTAACTCTTCTCGCTATAGACTCCCGGTGGATGCTTGCCATCAACCCCTAATTTTCTATGGTTGACCTCGGATCAGGTAGGGATACCCGCTGAACTTAAGCATATCAATAAGCGGAGGA"
[4] "AACGCACATTGCGCCCTGTGGTATTCCGCAGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTCTGCTTGGTGTTGGGCCCTGCCCGCTCGCGGCCGGCCCTAAAGACAGTGGCGGCGCCGTCTGGCCCTAAGCGTAGTACATCTCTCGCTCTAGGGCCCGGCGGTGGCTTGCCAGAACCCCGAACTCTGTGGTTGACCTCGGATCAGGTAGGGATACCCGCTGAACTTAAGCATATCAATAAGCGGAGGA"
[5] "AACGCACATTGCGCCCGCCAGCATTCTGGCGGGCATGCCTGTCCGAGCGTCATTTCAACCCTCAAGCTCTGCTTGGTGTTGGGGCCCTACGCGCTGAGCGTAGACCCCTAAAATCAGTGGCGGGCCCGCCGTGGCTCCGGGCGTAGTAGCAACACCTCGCCCTGGGACCGCGGCGCGCTCCGGCCGTTAAACCCCCACTATACAGAAGGTTGACCTCGGATCAGGTAGGAATACCCGCTGAACTTAAGCATATCAATAAGCGGAGGA"
[6] "AACGCACATTGCGCCCATTAGTATTCTAGTGGGCATGCCTGTTCGAGCGTCATTTCAACCCTTAAGCCTAGCTTAGTATTGGGAACTGGCTTTACTGCCATTCCTCAAATTCAACGGCGGATTTATAGCAATCTCTGAACGTAGTAATTTTTTCTCGTTTTTGAAATACTGTAAACCTCAGCCGCTAAACCCCCCAATTTTTAATGGTTGACCTCGGATCAGGTAGGAATACCCGCTGAACTTAAGCATATCAATAAGCGGAGGA"
[7] "AACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTCTGAGCGTCATTTCAACCCTCAGGACCCGTTCGCGGGACCTGGCGCTGGGGATCAGCCTGCCCTCGCGGCGGCTGGCCCTTAAAATCAGTGGCGGTCCTCTCGCGACCTCCTCCGTGCAGTAGTTACATACCTCGCGGCTGGATAGCGGTTGGGCCACGCCGTAAAACACCAAACTTTACAAGGTTGACCTCAGATCAGGTAGGAATACCCGCTGAACTTAAGCATATCAATAAGCGGAGGA"
[8] "AACGCACCTTGCGCTCCTTGGTATTCCGAGGAGCATGCCTGTTTGAGTGTCATTAAATTCTCAACCTCACCCGTTTTCTGAACGGTTCTCCGAGGCTTGGATGTGGGGGTTTGTGCAGGCTGCCTCAGCGCGGTCTGCTCCCCTGAAATGTATTAGCGAGATTCATATCTGAACCTCCGTCTATCGGTGTGATAATTATCTACGTCGTTGACTTGGTTCGGACTCGCTTCTAACCGTCCGCGAGGACAACATTACTTGACAATTTGACCTCAAATCAGGTAGGACTACCCGCTGAACTTAAGCATATCAATAAGCGGAGGA"
[9] "AACGCACCTTGCGCTCCTTGGTATTCCGAGGAGCATGCCTGTTTGAGTGTCATTAAATTCTCAACCTTTCCTACTTTTACTTGTCAGGTCAGGCTTGGATATGGGGGTTGCGGGCTTCGTAAGAAGTCGGCTCTCCTTAAATGTATTAGCAGAACCTTTGTGGAACAGCTATTGGTGTGATAATTATCTACGCCATTGGTTGTGAAGCTTTACATAGGGCTCAGCTTCTAACCGTCCATTGACTTGGACAATTTCTGACATTTTGACCTCAAATCAGGTAGGACTACCCGCTGAACTTAAGCATATCAATAAGCGGAGGA"
[10] "AACGCACCTTGCACTCTTTGGTATTCCGAAGAGTATGCTTGTTTGAGTATCATTAAATTCTCAAACCACTACTTGGTTTTATATCAAGTCAGTGGCTTTGGATGTGGAGGTTGCAGGCTTCTTGTAAAGTCTGCTCTTCTTAAAAGCATTAGTGGTTATTGATTCCACTTCTTGGTGTGATAATATCTACGCCTTGTAAGAACGGATCTAATGTAGCTGCTCTCAAACCGTCTTTATTGACAATTTGAACCATTTGATCTCAAATCAAGTAGGACTACCCGCTGAACTTAAGCATATCAATAAGCGGAGGA"
[11] "AACGCAACTTGCGCCCCTTTGGGGCATGTCTGTTTGAGCATCAGCAAACAAGAATACATGTGGATGGAAATCCACCTGTGAAGTGCTGGTCCAGTATGGTCTGGTGGAATGTAGAAATATATCACGTGGATTTGGTGGGTGACTTGAAGCTAGAGACGCAGGGACGGCAGGATTTAACATCTTGTTCGTCTTGACGTTTTGTTCTTCGTCCTGACGTTTTGTTCTTGTCCCCCTCCTTTCTTCACTTACCCCTTGATCTCAAATCAGGCAAGATTACCCGCTGAACTTAAGCATATCAATAAGCGGAGGA"

ids5
[1] 52 240 249 280 526 554 571 653 664 667 907
seqs5
[1] "AACGCACATTGCGCCCCTTGGTATTCCATGGGGCATGCCTGTTCGAGCGTCATTTGAACCCTCAAGCTCTGCTTGGTGTTGGGTGTTTGTCCCGCCATTTGCGCGTGGACTCGCCTTAAAGCAATTGGCAGCCATGTAATCCGGCTTTGAGCGCAGCACATTGCGTACTCTCTACTGGTACATTGGCATCCAGAAGCCCATTTTTTACTCTTGACCTCGGATCAGGTAGGGATACCCGCTGAACTTAAGCATATCAATAAGCGGAGGA"
[2] "AACGCACATTGCGCCCCTTGGTATTCCGGGGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCACTGCTTGGTCTTGGGCCGCGCCGGCGACGGCGGGTCTCAAACGTAGTGGCGGCACCATCGGTTCCCTCAGTGTAGTAATATCTCTCGCTGCTGGGCTGCGGTGGCTGCTAGCCAGTAACCCCTAATTTTCTCTGGTTGACCTCGGATCAGGTAGGGATACCCGCTGAACTTAAGCATATCAATAAGCGGAGGA"
[3] "AACGCACATTGCGCCCCTTGGTATTCCGAGGGGCATGCCTGTTCGAGCGTCATTATAACCTCTCAAGCTCAAGCTTGGTATTGGGGCCTGCTGCACCGGCAGCCCTTAAAATCAGTGGCGGTGCTATCTGGCTCTAAGCGTAGTAACTCTTCTCGCTATAGACTCCCGGTGGATGCTTGCCATCAACCCCTAATTTTCTATGGTTGACCTCGGATCAGGTAGGGATACCCGCTGAACTTAAGCATATCAATAAGCGGAGGA"
[4] "AACGCACATTGCGCCCTGTGGTATTCCGCAGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTCTGCTTGGTGTTGGGCCCTGCCCGCTCGCGGCCGGCCCTAAAGACAGTGGCGGCGCCGTCTGGCCCTAAGCGTAGTACATCTCTCGCTCTAGGGCCCGGCGGTGGCTTGCCAGAACCCCGAACTCTGTGGTTGACCTCGGATCAGGTAGGGATACCCGCTGAACTTAAGCATATCAATAAGCGGAGGA"
[5] "AACGCACATTGCGCCCGCCAGCATTCTGGCGGGCATGCCTGTCCGAGCGTCATTTCAACCCTCAAGCTCTGCTTGGTGTTGGGGCCCTACGCGCTGAGCGTAGACCCCTAAAATCAGTGGCGGGCCCGCCGTGGCTCCGGGCGTAGTAGCAACACCTCGCCCTGGGACCGCGGCGCGCTCCGGCCGTTAAACCCCCACTATACAGAAGGTTGACCTCGGATCAGGTAGGAATACCCGCTGAACTTAAGCATATCAATAAGCGGAGGA"
[6] "AACGCACATTGCGCCCATTAGTATTCTAGTGGGCATGCCTGTTCGAGCGTCATTTCAACCCTTAAGCCTAGCTTAGTATTGGGAACTGGCTTTACTGCCATTCCTCAAATTCAACGGCGGATTTATAGCAATCTCTGAACGTAGTAATTTTTTCTCGTTTTTGAAATACTGTAAACCTCAGCCGCTAAACCCCCCAATTTTTAATGGTTGACCTCGGATCAGGTAGGAATACCCGCTGAACTTAAGCATATCAATAAGCGGAGGA"
[7] "AACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTCTGAGCGTCATTTCAACCCTCAGGACCCGTTCGCGGGACCTGGCGCTGGGGATCAGCCTGCCCTCGCGGCGGCTGGCCCTTAAAATCAGTGGCGGTCCTCTCGCGACCTCCTCCGTGCAGTAGTTACATACCTCGCGGCTGGATAGCGGTTGGGCCACGCCGTAAAACACCAAACTTTACAAGGTTGACCTCAGATCAGGTAGGAATACCCGCTGAACTTAAGCATATCAATAAGCGGAGGA"
[8] "AACGCACCTTGCGCTCCTTGGTATTCCGAGGAGCATGCCTGTTTGAGTGTCATTAAATTCTCAACCTCACCCGTTTTCTGAACGGTTCTCCGAGGCTTGGATGTGGGGGTTTGTGCAGGCTGCCTCAGCGCGGTCTGCTCCCCTGAAATGTATTAGCGAGATTCATATCTGAACCTCCGTCTATCGGTGTGATAATTATCTACGTCGTTGACTTGGTTCGGACTCGCTTCTAACCGTCCGCGAGGACAACATTACTTGACAATTTGACCTCAAATCAGGTAGGACTACCCGCTGAACTTAAGCATATCAATAAGCGGAGGA"
[9] "AACGCACCTTGCGCTCCTTGGTATTCCGAGGAGCATGCCTGTTTGAGTGTCATTAAATTCTCAACCTTTCCTACTTTTACTTGTCAGGTCAGGCTTGGATATGGGGGTTGCGGGCTTCGTAAGAAGTCGGCTCTCCTTAAATGTATTAGCAGAACCTTTGTGGAACAGCTATTGGTGTGATAATTATCTACGCCATTGGTTGTGAAGCTTTACATAGGGCTCAGCTTCTAACCGTCCATTGACTTGGACAATTTCTGACATTTTGACCTCAAATCAGGTAGGACTACCCGCTGAACTTAAGCATATCAATAAGCGGAGGA"
[10] "AACGCACCTTGCACTCTTTGGTATTCCGAAGAGTATGCTTGTTTGAGTATCATTAAATTCTCAAACCACTACTTGGTTTTATATCAAGTCAGTGGCTTTGGATGTGGAGGTTGCAGGCTTCTTGTAAAGTCTGCTCTTCTTAAAAGCATTAGTGGTTATTGATTCCACTTCTTGGTGTGATAATATCTACGCCTTGTAAGAACGGATCTAATGTAGCTGCTCTCAAACCGTCTTTATTGACAATTTGAACCATTTGATCTCAAATCAAGTAGGACTACCCGCTGAACTTAAGCATATCAATAAGCGGAGGA"
[11] "AACGCAACTTGCGCCCCTTTGGGGCATGTCTGTTTGAGCATCAGCAAACAAGAATACATGTGGATGGAAATCCACCTGTGAAGTGCTGGTCCAGTATGGTCTGGTGGAATGTAGAAATATATCACGTGGATTTGGTGGGTGACTTGAAGCTAGAGACGCAGGGACGGCAGGATTTAACATCTTGTTCGTCTTGACGTTTTGTTCTTCGTCCTGACGTTTTGTTCTTGTCCCCCTCCTTTCTTCACTTACCCCTTGATCTCAAATCAGGCAAGATTACCCGCTGAACTTAAGCATATCAATAAGCGGAGGA"

which does not correspond to the correct sequences that I want, it is giving the wrong information for some reason. Is there anything wrong with my code?

2

In itself, that line looks correct, but depends strongly on what the data actually looks like and how you obtained seqs5. To answer your question we need a lot more context, it would help if you create a reprex.

3

how do you know that to be the case ?
Is it that you judge that
AACGCACATTGCGCCCCTTGGTATTCCATGGGGCATGCCTGTTCGAGCGTCATTTGAACCCTCAAGCTCTGCTTGGTGTTGGGTGTTTGTCCCGCCATTTGCGCGTGGACTCGCCTTAAAGCAATTGGCAGCCATGTAATCCGGCTTTGAGCGCAGCACATTGCGTACTCTCTACTGGTACATTGGCATCCAGAAGCCCATTTTTTACTCTTGACCTCGGATCAGGTAGGGATACCCGCTGAACTTAAGCATATCAATAAGCGGAGGA is NOT the 52nd sequence entry in your original dataset ?

4

This topic was automatically closed 21 days after the last reply. New replies are no longer allowed.

If you have a query related to it or one of the replies, start a new topic and refer back with a link.