davidvilanova

Metagenomics

1

Hello, Is BESST suitable for scaffolding metagenomics contigs ? thanks,

How to delete an index in the docker image

2

Hi, I´m running the docker image. How can i completely remove an index ?? I have tried to run the docker in bash mode but didn´t find the binaries (e.g...

Metagenomics with multiple references

1

Hi, Can i use the tool with a fasta reference file with different bacterial genomes ? I’m trying to improve the model when running a metagenomics experiement, focusing only on...

long reads

2

Hi, Working with nanopore reads i´m using mash screen to identify the genomes from an input reads file as follow: `mash screen -w -p 3 refseq.genomes.k21s1000.msh reads_nanopore.fq.gz ` So far...

SSL problem while connecting to elastic ???

5

Hi, I´m trying to connect to elastic as follows: ``` host="192.168.1.210" schema="https" port=9200 user="myuser" pwd="mypasswd" index="myindex" ``` ``` es_conn

phyloseq support

1

Hello, Would it be possible to have phyloseq support or an easy way of building a new gneiss object based on a phyloseq object. Thanks

Hi. I went through the latest isoseq pipeline (v4.1.1) to run an inoseq experiment. I have started with a single bam files containing 3 samples did all the steps and...

invalid node_instance_type specified: 'm4.10xlarge'

1

Hello, It seems this instance is not supported by starcluster ?? However it is available for EC2 instances at the amazon website. !!! ERROR - invalid node_instance_type specified: 'm4.10xlarge' must...

Lambda SQK-NSK007 and crossbarcoding detection

7

Hi, I´m running porechop and used multiplex outpu on one sample that was built with barcode01 only. Here below the results. From the image below it looks that porechop is...

Silva database?

14

Hi, Thanks for the gtdb-taxdump. I´m working on Silva , is there any available tax dump ?