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**1. Suppl Figure 1**
- [x] A. FACS plots of PND8 and PND15 spermatogonia isolation (Irina)
- [x] B. Immunocytochemistry (ICC) of sorted vs unsorted spermatogonia population (Irina)
- [x] C. …
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Hello,
I am trying to use the cnv_ltffinder2gff.pl and I keep getting this error:
```
stephenwyka@bspmgenomics:/data/wyka/transposable_elements/LM470$ ../../dawgpaws/scripts/cnv_ltrfinder2gff.p…
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Hello,
First thank you for your work. I would like to test your tool on other sub-families of transposable elements so I'm trying to follow the instructions but I have some questions.
I have a …
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When I run RetroSeq in the align mode, it gets to PE alignment parsing and then breaks. Not sure what the error means (uninitialized value before assignment?).
Input: perl bin/retroseq.pl -discover -…
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Hi,
Thanks for developing this useful tool! I got two questions about using telescope:
1. How to prepare a reference GTF for mm10? [telescope_annotation_db](https://github.com/mlbendall/telescop…
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I am encountering difficulties in downstream analysis due to the inability to locate the correspondence between the numerical identifiers in the output matrix and the subfamily and loci of transposabl…
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Hi Yang,
I am so glad that you have developed such an amazing software for expression quantfication of transposable elements. But now it occured a weird error in Count step, the script I used worke…
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Hello,
Thanks for scTE!
I did run it in my mouse scRNA seq data, however, I haven't been able to read the output file... it is too big!
I have a .csv of 60gb for each of my samples and I can't read…
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Dear @oushujun ,
Thank you for developing this useful tool. I have run it successfully and found that SINEs and LINEs could't be identified based on structure features. However, we didn't have such T…
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For now the pipeline uses the gencode bedfile to measure chromatin accessibility around the gene body.
We want to include other bedfiles, such as protein binding sites or repeat.