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Comment: Comment: How does the DNA-seq machine know which strand that is forward/reverse?
13 months ago by scchess ▴ 640
8
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7
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16k
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6 follow
DESeq2 - "all gene-wise dispersion estimates are within 2 orders of magnitude"
deseq2 RNA-Seq R
updated 2.9 years ago by 45k • written 10.3 years ago by ▴ 640
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1
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2.4k
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Comment: C: Filtering large VCFs by allele freqency using bcftools split-vep function
5.0 years ago by scchess ▴ 640
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0
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6.0k
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Comment: C: VariantFiltration warning "undefined variable"
5.4 years ago by scchess ▴ 640
0
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0
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314k
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Comment: C: How To Filter Mapped Reads With Samtools
5.5 years ago by scchess ▴ 640
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0
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26k
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Comment: C: single line fasta to mult line fasta
5.7 years ago by scchess ▴ 640
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0
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5.8k
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Comment: C: What's the precise definition for sensitivity and specificity for alignment?
updated 5.8 years ago by 45k • written 9.7 years ago by ▴ 640
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0
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12k
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Answer: A: Cufflinks Segmentation Fault
updated 6.0 years ago by 45k • written 10.3 years ago by ▴ 640
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1
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8.7k
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Comment: C: How to calculate overall coverage in de novo metagenomics assembly?
updated 6.0 years ago by 45k • written 10.4 years ago by ▴ 640
0
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1
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8.7k
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Comment: C: How to calculate overall coverage in de novo assembly?
updated 6.0 years ago by 45k • written 10.4 years ago by ▴ 640
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0
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5.9k
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Answer: A: Differential expression without technical replicates
updated 6.0 years ago by 45k • written 10.4 years ago by ▴ 640
0
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1
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15k
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Comment: C: How to map contigs to the reference genome and know the start and end position?
6.5 years ago by scchess ▴ 640
0
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0
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12k
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Comment: C: Producing the Reverse-complement of each sequence in fastq files
6.5 years ago by scchess ▴ 640
3
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3
replies
5.5k
views
How to convert VarScan TAB format to VCF?
genome varscan2
updated 6.7 years ago by ▴ 20 • written 9.5 years ago by ▴ 640
0
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1
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223k
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Comment: C: Correct Way To Parse A Fasta File In Python
6.7 years ago by scchess ▴ 640
0
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1
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14k
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Comment: C: CDS vs cDNA vs transcript for mapping RNA-Seq reads
6.7 years ago by scchess ▴ 640
0
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0
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16k
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Comment: C: Indel Left/Right Alignment
6.8 years ago by scchess ▴ 640
0
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0
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26k
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Comment: C: How to order columns of heatmap as they are in matrix data
6.9 years ago by scchess ▴ 640
0
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0
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14k
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Comment: C: How to get just protein_coding genes using biomart in R
6.9 years ago by scchess ▴ 640
0
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0
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5.8k
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Comment: C: How to separate htseq-count table to coding RNAs and non-coding RNAs
6.9 years ago by scchess ▴ 640
0
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0
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5.8k
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Comment: C: How to separate htseq-count table to coding RNAs and non-coding RNAs
6.9 years ago by scchess ▴ 640
18
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9
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5.9k
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Is Sleuth a good package?
RNA-Seq R kallisto sleuth
6.9 years ago by scchess ▴ 640
0
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0
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41k
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Comment: C: extract only geneID and gene symbol from GTF file
7.0 years ago by scchess ▴ 640
0
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0
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6.3k
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Comment: C: PED file format for use with GATK PhaseByTransmission
7.2 years ago by scchess ▴ 640
0
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0
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4.4k
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Comment: C: gVCF files into Plink!
7.2 years ago by scchess ▴ 640
0
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0
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4.8k
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Comment: C: split fasta of a protein sequence into consecutive n amino acids
7.3 years ago by scchess ▴ 640
0
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0
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9.2k
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Comment: C: Finding Kmers From Fasta File
7.3 years ago by scchess ▴ 640
5
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1
reply
18k
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Answer: A: fasta file to tab delimited file
updated 7.3 years ago by 16k • written 7.3 years ago by ▴ 640
0
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2
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18k
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Comment: C: fasta file to tab delimited file
7.3 years ago by scchess ▴ 640
0
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1
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18k
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Comment: C: fasta file to tab delimited file
7.3 years ago by scchess ▴ 640
0
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0
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14k
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Comment: C: Annotation for SV and CNV
7.3 years ago by scchess ▴ 640
0
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1
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2.8k
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Comment: C: SOS -- MuTect is picking up obvious germline mutations
7.4 years ago by scchess ▴ 640
0
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0
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9.0k
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Answer: A: Dbsnp In Vcf
7.4 years ago by scchess ▴ 640
0
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0
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9.0k
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Comment: C: Dbsnp In Vcf
7.4 years ago by scchess ▴ 640
0
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0
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9.0k
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Comment: C: Dbsnp In Vcf
7.4 years ago by scchess ▴ 640
0
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0
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6.6k
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Comment: C: Randomly Split A Fastq File
8.1 years ago by scchess ▴ 640
0
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0
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8.5k
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Answer: A: K-mers using JEllyfish
8.3 years ago by scchess ▴ 640
0
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0
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2.4k
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Comment: C: Bug in RUV spike-in normalization?
8.4 years ago by scchess ▴ 640
2
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2
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2.4k
views
Bug in RUV spike-in normalization?
RNA-Seq statistics biostatistics
updated 8.4 years ago by ▴ 270 • written 8.9 years ago by ▴ 640
0
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1
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6.2k
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Comment: C: Individual whole genome sequence data download FASTQ
8.5 years ago by scchess ▴ 640
3
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3
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4.5k
views
How to fix my broken GTF file?
gtf
updated 8.5 years ago by 5.0k • written 8.5 years ago by ▴ 640
4
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4
replies
2.6k
views
How cuffcompare calculates sensitivity and specificity?
cufflinks statistics
updated 3.3 years ago by 45k • written 10.5 years ago by ▴ 640
5
votes
2
replies
4.3k
views
How should I choose? Decoy or not?
genome
updated 2.5 years ago by • 0 • written 8.6 years ago by ▴ 640
1
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0
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14k
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Comment: C: How to count SNPs, InDels
8.6 years ago by scchess ▴ 640
1
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3
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1.7k
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Management software for my samples?
rna-seq sequencing
8.6 years ago by scchess ▴ 640
0
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0
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11k
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Comment: C: Automatic IGV snapshot script
8.7 years ago by scchess ▴ 640
13
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3
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8.1k
views
How to sort VCF "chr1, chr2..."
vcf
updated 8.7 years ago by ★ 2.8k • written 8.7 years ago by ▴ 640
0
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0
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8.1k
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Comment: C: How to sort VCF "chr1, chr2..."
8.7 years ago by scchess ▴ 640
0
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0
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8.2k
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Comment: C: How To Reorder Bam File Contigs For The Gatk Pipeline
8.7 years ago by scchess ▴ 640
4
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1
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8.0k
views
Comment: C: Develop an R package for CRAN vs BioConductor
8.8 years ago by scchess ▴ 640
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