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I am doing a test run for TSScall as follow:
python TSScall.py GSE43390_40HT_f.bedgraph GSE43390_40HT_r.bedgraph mm9.chrom.sizes GSE43390_40HT_m37.bed
An error message was generated:
Traceback (…
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@szsctt I have some issues getting all the input files for vifi and the HG37:
mappability: "../vifi-test/data_repo/GRCh38/hg38full_k35_noMM.mappability.bedgraph"
mappability_exclude: "../data/refe…
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I'm running the command
```
clodius aggregate bedgraph data/bedgraph_chrx_2e6_5e6.bg.bedgraph.sorted --output-file data/bedgraph_chrx_2e6_5e6.bg.bedgraph.out --chromosome-col 1 --from-pos-col 2 --…
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On latest run of Allen2014 data, two of the 8 datasets were missing data from certain chromosomes... memory leak issue? I'll re-run FStitch individually on the two that are missing data to test this.
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Dear devs,
I'm interested in visualizing a pangenome matrix from odgi pavs in JBrowse1.
Maybe someone has made something like this viewer, panache as an example.
https://www.appliedbioinforma…
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HI, I have some questions in function bedToBam. my bedtools version is 2.25.0.
the commad
`bedToBam -i -g `
All bed data were perfomed on the human Chromosome 10, so I want to know the genome for…
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### [Transcription factors](https://www.youtube.com/watch?v=Sd3imcsvXxI)
1. Transcription factor (proteins) control the expression of genes by regulating the process of gene transcription.
![gene-…
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There are times where binning the data in a bedgraph track may not be the correct thing to do. I hardcoded the changes that I needed to make this plot (that I needed...). Other uses might want this …
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**Original report ([archived issue](https://hoffmangroup.github.io/genomedata-bitbucket-backup/#!/hoffmanlab/genomedata/issues/49)) by Coby Viner (Bitbucket: [cviner2](https://bitbucket.org/%7B5c0277b…
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cc: @nh13
I have a set of sequence features with a position and counts value that I am visualizing with IGV. I'm currently loading the file as a `bedgraph`, so that I can see the count value assoc…