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`ivar variants` outputs results only in custom `.tsv` format so unusable with other tools.
Allow option to export variants in [VCF v4.3](https://samtools.github.io/hts-specs/VCFv4.3.pdf) format.
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Hello,
MACS2 stalls at the following line:
```
#3 Pre-compute pvalue-qvalue table...
```
I have two BAM files, one converted to BAM from Bowtie2 output and the other which has underwent some proces…
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**Are you using the latest release?**
funannotate v1.8.17
**Describe the bug**
I'm trying to run the test after installation using `funannotate test -t all --cpus 10` but it crashes in the `funan…
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Apt-get fails to install software, e.g.
```
jdm@tod:~$ sudo apt-get install csh
Reading package lists... Done
Building dependency tree
Reading state information... Done
The following packages …
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Hi,
I am trying to create the environment for ngs_te_mapper2. I have attempted to use either mamba or conda with:
mamba create -n ngs_te_mapper2 --channel bioconda ngs_te_mapper2
or conda …
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Hi,
Installation from the environmeent file does not work:
```
mamba env create -f ChameleolyserEnvironment.yml
bioconda/linux-64 Using cache
bioconda/n…
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I used spaln to annotated a gene structure in de-nove assembly using a homologous protein, but spaln report error (Segmentation fault (core dumped)). The command as follow
spaln -Q3 -O0 -KP -C1 -M100…
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It would be nice to build all versions of a package given the version number `*`, at least for package managers that support it.
Moreover, if we do not consider the build string in conda, we need a w…
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(nanom6A_env) [yangsiyu@localhost A]$ python ~/software/nanom6A_2021_3_18/predict_sites.py --cpu 20 -i 0_fast5_pass_test0_single_result -o 0_fast5_pass_test0_single_result_final -r /home/yangsiyu/geno…
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how to create or find "genes.refGene" file for hg19, hg38.
i have got "genes.refGene" file from USSC but these are not working for my case
error shows :
Traceback (most recent call last):
…