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52k
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750
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11k
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Pierre Lindenbaum
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65
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24
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18k
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updated 11 months ago by
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44k
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Pierre Lindenbaum
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64
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25
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61
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11k
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40k
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written 12.1 years ago by
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900
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30
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12k
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22
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32k
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520
56
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12
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13k
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Pierre Lindenbaum
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55
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15
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104k
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Tutorial:
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22k
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12
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29k
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written 12.5 years ago by
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8.1k
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written 14.6 years ago by
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250
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14
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41k
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updated 10 months ago by
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written 14.5 years ago by
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390
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19
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Comment: How to count the number and proportion of different barcode combinations in DNA
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dsull
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I have no idea what you’re asking. “185 base sequences”? — i have no idea what that means; do you mean there are 185 possible barcodes? Whe…
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Show us a few examples of reads. Since you said `barcode` I assume these are `in-line` in the sequencing read. What is the length of these …
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Get a BED file of the promoter genomes and then use `bedtools intersect` (https://bedtools.readthedocs.io/en/latest/content/tools/intersect…
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A better option is to submit separate SLURM jobs for each genome. Using a `for` loop inside a single SLURM job is not efficient. Instead do…
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Thanks! I will check with him and see if this works for him.
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I understand how max-depth works, but I asked about max-idepth, indelgap and snpgap
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Start here: https://www.nextflow.io/
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Thank you so much, Dr. Lindenbaum, for the valuable comment. I'm not quite experienced in nextflow, but I like to test this out. Can you pr…
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> I cannot use it in anyway?
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I hope this may help:
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For the depth part, let us assume we used the following command `bcftools …
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Pierre, thank you. When you say broken/corrupted does it mean I cannot use it in anyway? i was able to run samtools mpileup just this week …
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your file input.bam is broken/corrupted. There is nothing you can do but regenerating this file.
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Nice, but you'd better learn to use a workflow manager like snakemake or nextflow. See NF below (not tested):
```
workflow {
c…
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I am very new to IGV I am not sure how to do that I took several screenshot because I do not know which part is the mutation I want
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Could you please tell me how can I access inflammatory genes for certain organs to study like wanna study inflammatory genes in HCC,
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