ngs-tools

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Relationship between the STAT analysis data available on the NCBI SRA Run Browser and that on the cloud platform

2

I am writing to seek your assistance with a question regarding the Cloud-based Taxonomy Analysis Information Table. I noticed a discrepancy between the “identified_spot_count” available on the cloud platform and...

Junna-Kawasaki

aboshkin

Hello, I'm trying to use the STAT tools to build a database from fasta sequences, and then using it to do metagenomics/taxonomic analyses. So I'm following the tutorial in the...

ecalfapietra

Taxonomy analysis on SRA submission inconsistent

3

Case Information: Case #: CAS-1078261-J6B3G5 Customer Name: Bergsagel, Leif, M.D. Customer Email: [[email protected]](mailto:[email protected]) Case Created: 3/12/2023, 3:33:05 AM Summary: PRJNA938752 Details: I have had a problem with Taxonomy analysis of...

plbergsa

Adds a new tool that uses the reader classes from the aligns_to tool. Output is fasta on stdout.

durbrow

CMake Error: The source directory "/home/shutovo/test/ngs-tools" does not exist.

2

While trying to install STAT using the instructions [here](https://www.ncbi.nlm.nih.gov/sra/docs/sra-taxonomy-analysis-tool/), I run across a problem running `make` in these steps: `cd ngs-tools` `./configure` `make -C tools/tax` The error looks like this:...

jessicarowell

Way to access NCBI STAT data in bulk

3

Hi, I'm wondering is there any way to access the taxonomic data that STAT is automatically generating on each NCBI run? Every metagenomic upload on the SRA has this analysis...

Jalapenobadger

a couple of problems on CentOS 8

1

There are a couple of small issues when building ngs-sdk on CentOS 8. (1) In $TOPDIR/share/examples-java/Makefile NGS_CLASS_PATH is defined but the javac line is: ` javac $(DEBUGGING) $^ -d ....

mathog

Explain/Show general workflow for NCBI SRA Taxonomy Analysis Tool (STAT)

3

I was able to install this program. However, It is hard to figure out which script/binary need to run first? For example, do we need to download the list of...

ashishdamania

no 'build' directory found on skesa branch in tools/skesa

5

Hello, I'm trying to install skesa. I cloned the repo as per README.md. Then had to checkout the skesa branch (which is not in the readme). Now I cannot find...

pcantalupo