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Originally, to generate the STAR_Index and RSEM_index, the same gtf, the gtf prior to collapse by gene should be used. However, as we decided to do STAR_indexing on the fly, it slip my mind and gave a…
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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 @quattro,
I am trying to create the weight database using Predixcan v8 (downloaded from `https://predictdb.org/post/2021/07/21/gtex-v8-models-on-eqtl-and-sqtl/`). However, I am encountering the…
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From Jared @Jared Nedzel :
Folks, I’m working on the GTEx C2M2 submission and have some followup ontology questions from our meeting last week.
First, I wanted to confirm how we deal with compress…
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Hello,
I would like to do TWAS using Retina tissue that is not yet part of GTEX and my UK Biobank GWAS data. Does using UTMOST in that case make sense and which series of steps I would need to perf…
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When submitting jobs using TensorQTL.ipynb, there is either KeyError or ValueError. I changed the following indices
pairs_df.columns.values[7] = "pvalue"
pairs_df.columns.values[8…
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To Whom It May Concern,
thanks for your effort in the development of leafcutter. It's really a helpful tool.
I used `leafcutter_cluster_regtools_py3.py` to get intron clustering.
I wonder if…
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Hi, first of all thank you for developing/maintaining Leafcutter which is among my favourite tools definitely!
I have come across with an issue while looking at reads for one sample on IGV. I know …
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Hi,
I found that the `outFilterMultimapNmax` is set to 20 in STAR alignments. I could not find anywhere in the code that only uniquely mapped reads are considered for downstream analysis of splicin…
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https://mp.weixin.qq.com/s/cE-KIGB07kk4nnveXyZ96Q
ixxmu updated
3 months ago