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As stated in the readme notes, RepeatMasker and RepeatModeler give trouble when installed from conda.
It was also my case, by using
conda install -c bioconda repeatmasker
and
conda install …
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Hey, great tool! Looks very promising to combine it with RepeatMasker gff3 annotation, and I love the way of installation - so easy! Every python program should do this!
So I tried it on a 44K-sequ…
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HI,
I use TEtranscripts for 30 kinds of tissue, the data was Paired-end, I don't know what kind of data should I put in control sample, what's the function of --control?Can I use Hisat2 for mappi…
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Hello, I'm running into what I think is an instalation and/or compatibility issue. The pipeline continues up to the generating the *_mergedRepeats stage but fails to geneate the GFF files with the me…
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Hello,
I am working with small RNAs in species that are not in the list of supported organisms. I was wondering whether it is possible to use genomes other than those speciefied in the download s…
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Hi,
I'm running braker with a bam file mapped with [star](https://github.com/alexdobin/STAR):
`braker.pl --genome_soft.fasta --bam Bud1Aligned.sortedByCoord.out.bam --softmasking --cores 4 --worki…
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Hello, it does not support bw files of wgbs? Thank you
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Dear Michael,
I followed your pipelines that published in gagascience (2020, 120way mammal) and aligned a new rodent genome to hg38.
After netClass, my net file looks like the following:
net ch…
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Hi,
I can't find any relationship infomation between DUSTER results and TE library sequences using test data, so we still need to annoate Duster results?
Or is there an easy way to know TE class…
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Hi Shujun,
I met two errors again.
1. Although I changed the flanking_filter.pl file as you advised in addf414 , It runs with the same error. I can ignore this error.
2. Warning: TIR/PiggyBac no…