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I am trying to run something like this:
```
$ cat a.bed
chr1 10 20 a1 1 -
$ cat b1.bed
chr1 5 6 b1.1 1 -
chr1 30 40 b1.2 2 +
$ cat b2.bed
chr1 0 1 b2.1 1 -
chr1 21 22 b2.2 2…
xguse updated
5 years ago
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Hi @wheaton5,
The singularity image in the latest release that you host on google drive is broken. The path looks like:
```
/miniconda3/bin:/miniconda3/condabin:/miniconda3/bin:/opt/minimap2-2.26…
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Hi, I am missing the scripts for creating the plots in figure 2 and the scripts to generate the relevant data. I am missing the same for parts d and e of figure 3. Could they please be added or shared
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Hello,
I found an issue regarding bamtofastq in bedtools (v2.30.0). When I convert a bam file into a fastq file, it seems to create duplicate reads. You can see that there are duplicate read in the…
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I didn't even know the "sample" feature existed, relying in part on this list: https://bedtools.readthedocs.io/en/latest/content/bedtools-suite.html
```
$ bedtools sample
Tool: bedtools samp…
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Hi, I'd like to report that some errors in `bedtools merge` wrongly returns exit code 0.
I confirmed that `make && make test` passed.
```
> printf 'chrI\t10\t20\nchrI\t15\t30\n' > simple3.bed
> …
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Hello,
I have a 10x scDNAseq tumor data and a matched bulk WGS normal data. I would like to perform CNA analysis using Alleloscope. I am not sure on how to prepare the 'Bin by cell (sparse) matrice…
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Hi, I am working on the m6a identification on my ONT data. I installed NanoSPA according to the instructions. I can run the test data successfully and get the output files in the plus_strand folder. H…
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```
I attempted to do an anonymous svn checkout using this command
svn checkout http://bedtools.googlecode.com/svn/trunk/ bedtools-read-only
But my bedtools-read-only directory does not contain any …
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Hello,
I get errors for all the window.t\* tests when I run the master-test.sh.
GEMINI VERSION: 0.14.0
OS: LINUX
BEDTOOLS: v2.22.1
Let me know if you need any other information.
Thanks a lot,
Nima…