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Capturing whole gene sequences from WGS metagenomics sample
metagenomics assembly contigs binning
updated 8.3 years ago by 5.3k • written 8.3 years ago by ▴ 200
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2.6k
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Statistical approach to identifying outliers in RNAseq data?
RNA-Seq outliers detection statistics
8.4 years ago by Lina F ▴ 200
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3.5k
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Comment: C: Calling SNPs with samtools: how to specify how many supporting observations are
8.4 years ago by Lina F ▴ 200
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2
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3.5k
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Calling SNPs with samtools: how to specify how many supporting observations are required?
samtools variant calling snps freebayes
updated 8.4 years ago by 20k • written 8.4 years ago by ▴ 200
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1.6k
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Comment: C: RNAseq transcript quantification: how to deal with different number of genes in
8.4 years ago by Lina F ▴ 200
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2
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1.6k
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RNAseq transcript quantification: how to deal with different number of genes in host organism?
RNA-Seq sailfish quantification transcripts R
updated 8.4 years ago by 35k • written 8.4 years ago by ▴ 200
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2.8k
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Comment: C: Best reference database for 16S soil datasets?
8.5 years ago by Lina F ▴ 200
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4
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2.8k
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Best reference database for 16S soil datasets?
metagenomics soil reference 16S
updated 8.5 years ago by ★ 5.2k • written 8.5 years ago by ▴ 200
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2.8k
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Comment: C: Best reference database for 16S soil datasets?
8.5 years ago by Lina F ▴ 200
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2.0k
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Comment: C: How to assess biases in ribosomally depleted RNAseq data?
8.5 years ago by Lina F ▴ 200
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4
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2.0k
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How to assess biases in ribosomally depleted RNAseq data?
RNA-Seq bias transcripts
8.6 years ago by Lina F ▴ 200
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1
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2.0k
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Comment: C: How to assess biases in ribosomally depleted RNAseq data?
8.6 years ago by Lina F ▴ 200
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3.8k
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Answer: A: RSeQC GeneBody function error. Stops at R Script Step
8.6 years ago by Lina F ▴ 200
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0
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1.9k
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How does RNA-SeQC calculate the "Mean CV" value?
RNA-Seq qc coefficient of variation
8.6 years ago by Lina F ▴ 200
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0
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2.7k
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How to format input data for Picard CollectRnaSeqMetrics
picard RNA-Seq gtf
updated 8.7 years ago by 166k • written 8.7 years ago by ▴ 200
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2.2k
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Comment: C: RNA-SeQC does not calculate information about "Strand Specificity"
8.7 years ago by Lina F ▴ 200
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2
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2.2k
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RNA-SeQC does not calculate information about "Strand Specificity"
RNA-Seq qc
updated 8.7 years ago by 8.3k • written 8.7 years ago by ▴ 200
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1
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2.0k
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Answer: A: Classification of bacteria - bioinformatics
8.7 years ago by Lina F ▴ 200
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3.7k
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Comment: C: Yeast GTF file needed for RNA-SeQC run
8.7 years ago by Lina F ▴ 200
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2
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3.7k
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Yeast GTF file needed for RNA-SeQC run
qc gtf yeast RNA-Seq RNA-SeQC
updated 8.7 years ago by ▴ 610 • written 8.7 years ago by ▴ 200
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7.0k
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Comment: C: bwa mem: which parameters to tune to improve alignment?
8.8 years ago by Lina F ▴ 200
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6
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7.0k
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bwa mem: which parameters to tune to improve alignment?
bwa parameters tuning
8.8 years ago by Lina F ▴ 200
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0
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3.4k
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Comment: C: Generating consensus sequences
8.8 years ago by Lina F ▴ 200
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2
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3.4k
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Generating consensus sequences
consensus fasta bwa vcftools
updated 8.8 years ago by ▴ 290 • written 8.8 years ago by ▴ 200
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1
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1.8k
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FreeBayes does not deal with ambiguous nucleotides -- what are good alternatives?
freebayes open source SNP
8.9 years ago by Lina F ▴ 200
6
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6
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9.9k
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Cannot find downloaded files from SRA toolkit (prefetch)
prefetch sratoolkit
updated 2.3 years ago by 45k • written 8.9 years ago by ▴ 200
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1
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9.9k
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Comment: C: Cannot find downloaded files from SRA toolkit (prefetch)
8.9 years ago by Lina F ▴ 200
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0
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9.9k
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Comment: C: Cannot find downloaded files from SRA toolkit (prefetch)
8.9 years ago by Lina F ▴ 200
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0
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1.7k
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Comment: C: Do I need to explicitly remove rRNA from E. coli RNAseq data?
8.9 years ago by Lina F ▴ 200
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2
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1.7k
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Do I need to explicitly remove rRNA from E. coli RNAseq data?
rrna rnaseq ecoli transcriptomics
8.9 years ago by Lina F ▴ 200
1
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0
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4.3k
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Answer: A: Best de novo assembler for insect genome ?
8.9 years ago by Lina F ▴ 200
0
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1
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7.8k
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Comment: C: Error while trying to get consensus Fastq from BAM
8.9 years ago by Lina F ▴ 200
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4.0k
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Comment: C: Reference assisted whole-genome assembly pipeline - YEAST!
8.9 years ago by Lina F ▴ 200
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4.0k
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Answer: A: Reference assisted whole-genome assembly pipeline - YEAST!
8.9 years ago by Lina F ▴ 200
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2
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4.5k
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How to demultiplex 16S PE Miseq reads?
miseq demultiplex fastq 16S paired end reads
9.2 years ago by Lina F ▴ 200
0
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1
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1.6k
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Microbiome data: Should unmatched reads be included in Shannon Diversity calculations?
microbiome shannon diversity unmatched reads
9.6 years ago by Lina F ▴ 200
2
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1
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4.0k
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Extracting more features from EMBL files with Biopython
embl biopython
updated 2.9 years ago by 45k • written 10.2 years ago by ▴ 200
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0
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2.8k
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Comment: Comment: How to incorporate metadata in 16S amplicon study and identify confounding varia
updated 2.7 years ago by 45k • written 10.3 years ago by ▴ 200
2
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3
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2.8k
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How to incorporate metadata in 16S amplicon study and identify confounding variables
amplicon confounders 16S
updated 2.7 years ago by 45k • written 10.3 years ago by ▴ 200
8
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8
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5.1k
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Is the order of records in the bam file produced by bwa the same as the order in the input fastq file?
mem fastq bwa aln sampe
updated 4.5 years ago by 45k • written 10.9 years ago by ▴ 200
0
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0
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5.1k
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Comment: Comment: Is the order of records in the bam file produced by bwa the same as the order in
updated 4.5 years ago by 45k • written 10.9 years ago by ▴ 200
0
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1
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5.1k
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Answer: Answer: Is the order of records in the bam file produced by bwa the same as the order in
updated 4.5 years ago by 45k • written 10.9 years ago by ▴ 200
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