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Are there "gold standard" datasets for identification of antibiotic resistance genes from metagenomic samples?
amr antibiotic resistance classification metagenomics
4 months ago by Bertalan_Takacs ▴ 110
3
votes
3
replies
626
views
Check if a BAM file is corrupt in Java
bam java
updated 6 months ago by 165k • written 6 months ago by ▴ 110
2
votes
1
reply
498
views
How to cluster microbial samples after principal coordinate analysis based on beta-diversity
clustering bray-curtis microbiome pcoa
updated 8 months ago by ★ 28k • written 8 months ago by ▴ 110
0
votes
5
replies
803
views
Is it possible to get a list of representative genomes from a past RefSeq release?
representative ncbi asembly refseq
updated 9 months ago by 149k • written 9 months ago by ▴ 110
0
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0
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556
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I keep running into errors with the metagenomic classifer GOTTCHA. Can anybody offer some suggestions?
gottcha classification metagenomics
18 months ago by Bertalan_Takacs ▴ 110
3
votes
2
replies
1.5k
views
Subsetting DGEList object for for a list of genes of interest
dgelist transcriptomics subset edgeR
updated 2.3 years ago by 149k • written 2.3 years ago by ▴ 110
5
votes
2
replies
741
views
What does the semicolon notation mean in proteomics analysis
differential expression semicolon proteomics analysis
2.3 years ago by Bertalan_Takacs ▴ 110
4
votes
4
replies
1.4k
views
Precision-recall curve to compare metagenome classifiers to a gold standard - Is this even a viable method?
classification recall precision metagenome
18 months ago by Bertalan_Takacs ▴ 110
0
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0
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514
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Microbiome beta-diversity: Bray-Curtis dissimilarity seems to be biased toward more diverse populations
bray-curtis beta-diversity microbiome classification dissimilarity
2.7 years ago by Bertalan_Takacs ▴ 110
0
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0
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414
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Immediate segmentation error when using STAR on SMART-Seq data
segmentation smart-seq dumped scRNA-seq STAR
2.7 years ago by Bertalan_Takacs ▴ 110
2
votes
1
reply
1.0k
views
Galaxy error "FATAL: container creation failed"
cellranger galaxy pipeline containercreation scrna-seq
updated 2.8 years ago by 149k • written 2.8 years ago by ▴ 110
5
votes
3
replies
5.2k
views
BLAST nr download and build - "nr.gz: invalid compressed data--format violated"
gzip nr BLAST
updated 23 months ago by 44k • written 3.0 years ago by ▴ 110
2
votes
2
replies
855
views
How to treat bacterial genomes made up of multiple scaffolds in in silico metagenome data generation
ncbi generation assembly metagenome insilico
3.0 years ago by Bertalan_Takacs ▴ 110
0
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3
replies
3.5k
views
Can't download files from the ENA (European Nucleotide Archive) site
ENA
updated 23 months ago by 44k • written 3.9 years ago by ▴ 110
2
votes
1
reply
1.1k
views
What is the best way for bacterial variant calling?
mutation prokaryote illumina variant calling
updated 3.6 years ago by 102k • written 3.6 years ago by ▴ 110
0
votes
0
replies
684
views
Generating random bed with interval lenghts following exponential distribution
length bed distribution intervals random
3.7 years ago by Bertalan_Takacs ▴ 110
0
votes
0
replies
804
views
A question about analyzing MACS2 outputs
broad-peak dropa drip-seq macs2
3.9 years ago by Bertalan_Takacs ▴ 110
0
votes
0
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807
views
Reporting Kraken output in Sunbeam
metagenome sunbeam conda kraken2 multiqc
4.2 years ago by Bertalan_Takacs ▴ 110
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