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Hi,
I am attempting to perform a genome-guided assembly using Trinity. I have a BAM file aligned to the genome, and the command I used is:
singularity exec --bind /work /home/software/containers/tri…
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### Description of the bug
I get the error
```
ERROR ~ Cannot invoke method endsWith() on null object
…
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Dear
I am trying to do allelic analysis Hic data getting same error G2 is mapping reads are zero and iced normalisation step getting error. I used bellow command to run analysis. non allelic analysi…
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Hi,
Thank you for putting these reference genomes together! They've been very helpful for my work.
I'd like to use hg38-rDNA_v1.0.fa to map an RNAseq dataset using STAR. How should the annotation …
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Hi, I am trying to use pyGenomeTracks to generate a whole genome view similar to what IGV offers. However, I can only generate one plot per chromosome. Is there a way to create a whole genome preview,…
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Hello Alex,
The annotation of my reference genome is in gff3 format. For genome indexing, I used:
STAR --runMode genomeGenerate --runThreadN 40 --genomeDir genome \
--genomeFastaFiles r…
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Hello, the NeoLoopFinder only support human genome? I want use on other genomes.
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NC.1 >> C4093T, C11095T , C14931T, (C22498T), S:H445P (A22896C), C27002T
Query: C11095T , C14931T, C27002T
Samples: 2 on Gisaid 5 on Usher all from Scotland
Tree (Misplaced as KS.1.1.1 was already…
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https://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/hgPhyloPlace/subtreeAuspice38_genome_test_58193_…
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I am currently conducting Whole Genome Bisulfite Sequencing (WGBS) data analysis using Bismark and plan to utilize a soft-masked genome, where all repetitive and low-complexity regions are marked with…