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@lpantano @gurgese @ThomasDesvignes @mhalushka @mlhack @keilbeck @BastianFromm @ivlachos @TJU-CMC @sbb25 @phillipeloher
Hi all,
It will be a little long email, but please take 15 min to go over…
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Configuration file: db_main.toml
Description: miRDB is an online database for miRNA target prediction and functional annotations.
```toml
[db_mirdb]
source_url = "http://mirdb.org/download/miRDB…
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Hi Dr. Axtell,
Thanks for developing this useful software!! I've been attempting to utilize shortstack4.0.3 for both known and de novo miRNA prediction for wheat sRNA data. However, I encountered a…
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Hi,
I have been receiving the following error while executing miRDP2-v1.1.4_pipeline.bash even after formatting the input fasta files:
Use of uninitialized value $id in hash element at bin/scripts…
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Hi, I am wondering how to generate "human_mirna_SNP_pseudo_miRBase.fa" in "fasta.Libs" directory. It is quite different from "human_mature_miRBase.fa" as many miRNA ids are different between them in a…
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It would be nice to have a small set of functions to help users orient to a KGs (ie, handled by an engine) contents for effective querying. Some ideas:
summarize_nodes - count nodes in the KG, brok…
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Hi, I just report problematic named entities I found using `en_core_sci_sm`, to improve the model. Most of them contain unbalanced brackets.
```
(-2)-0-(+2
(-8
(= control values
(= controls
(=…
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I have been looking into using the RNA-seq data but have some questions on the gene annotations for the V2-RNA-seq data that I get from running your GDC-prepare-function.
How do the 21022 genes tha…
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Hi all again,
cc: @ThomasDesvignes @mhalushka @mlhack @keilbeck @BastianFromm @ivlachos @TJU-CMC
After giving some time to think, I realized we could ask slightly different for a solution the n…
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The following linkout pattern + example identifier combinations appear to be outdated or incorrect:
Do not resolve:
- [x] NuGO wiki: http://wiki.nugo.org/index.php/HMDB00001
- [x] LIPID MAPS: htt…