cobra
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linxingchen
A tool to raise the quality of viral genomes assembled from short-read metagenomes via resolving and joining of contigs fragmented during de novo assembly.
ImportError Traceback (most recent call last) Cell In[23], line 4 2 path='show' 3 test_path=("data1/densiflorus (plastid)- MT740250.1 retained.fasta") ----> 4 BCAWT_auto_test.auto_test(path,test_path) 5 BCAWT_auto_test.auto_check_file(path) File ~/miniconda3/lib/python3.11/site-packages/BCAWT/BCAWT_auto_test.py:24, in auto_test(path, test_file) 21 from BCAWT...
1. format code steply in a series of commits 2. [use trim_readno to determinate whether trim or not](https://github.com/linxingchen/cobra/commit/524edd46ea5d0662933180c9e46a533aeb3d1db1) as described in https://github.com/linxingchen/cobra/issues/15#issuecomment-1980997117
Hi Linxing, Great tool. I'm really interested in using it with some of my datasets. One question that came up in discussing COBRA with others was how it handles cases...
Hi Xinglin, Thank you for your outstanding paper and tool! I'm looking to identify RNA viruses in the metatranscriptome. After using Megahit for assembly, I'm curious if COBRA could be...
Hello Cobra authors! Thanks for building this tool. I keep getting this error of a contig file not being created. ``` Traceback (most recent call last): File "/home/mall0133/miniconda3/envs/cobra/bin/cobra-meta", line 10,...
Hi. This is great tool. I would like to use cobra for reconstructing complete virome genome-set from my gut metagenomic reads. Is it possible to provide some small test data...
Dear Linxing, Good afternoon. Thank you for this excellent paper and tool! I read this paper and shared it with my lab members. I have some questions about the application...
BLAST error
Thank you very much for your software output, which provides a new workflow for viral group research! ``` Building a new DB, current time: 03/09/2024 10:19:13 New DB name: /home/zhongpei/hard_disk_sda2/zhongpei/Virome/rawdata/upload_20230812/zhongpei_analyse/fastp/final_assembly/clean_TPM_Decontam_contig/Vir_result/AF11_metaSPAdes_COBRA/blastdb_1.fa...
Thanks for this great tool! However, I have a few questions on input for cobra 1. Now I'm using megahit to assembly (I just know from #3 that it may...
Hi Linxing: Thank you for developing this nice tool! I am curious about what's the functions does COBRA have in the classic virome pipeline as it's a new software. For...
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A tool to raise the quality of viral genomes assembled from short-read metagenomes via resolving and joining of contigs fragmented during de novo assembly.