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**Proceedings**
https://papers.nips.cc/book/advances-in-neural-information-processing-systems-30-2017
https://github.com/catpanda/NIPS_2017
**PaperLists (#Papers 679)**
https://www.dropbox.com/s…
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Dear developers,
Thanks for your great software!
I am working on assembling a putative hexaploid or octoploid plant genome with a genome size of ~1.45 Gb by flow cytometry. In addition, the only…
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Hello,
I have tested the velocyto.R package with Pagoda2 as described in tutorials. But I would really like to test it with Seurat2.
How do I create cell embedding, cell clustering, and accurate c…
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Hi There,
I am attempting to call cooltools.api.snipping.pileup(clr,features_df=peak_df , flank=300_000), where :
peak_df = pd.read_csv(f"ctcf.enhancer.promoters/{peak}.bed", sep="\t", names=['c…
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The RepeatModeler 2.0.1 is now in Conda.
Two optional tools are currently absent from the recipe:
- ABBlast due to the license
- Ninja because no recipe exists for it. I gave a try, it compile on…
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Hello again!
This is not a usage/implementation question as before but, rather, a request for troubleshooting advice.
So, we recently performed an experiment where we used MULTI-seq to multiplex…
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Dear Malte,
Using CAGEfightR for enhancer calling, I encountered the following issue:
Some bidirectional clusters have a high width and a high score while showing low balance over the entire regio…
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Hi,
I am interested in using long and short reads to assemble a transcriptome with RNA-Bloom2.
I had a few questions regarding pre-processing of reads before using RNA-Bloom2.
I am loosely fo…
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Hello,
I wonder how longphase handles supplementary alignments during phasing and haplotagging; as a separate read or they inherit HP/PS of the primary alignments.
Thank you,
Ayse
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Hi,
I run GRAViTy_Pipeline_I (example) with the following options:
GRAViTy_Pipeline_I \
--GenomeDescTableFile "./Test/Data/Ref/VMR_Test_Ref.txt" \
--ShelveDir "./Test/Analysis/Ref/VI" \
--Databa…