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Comment: Comment: How does the DNA-seq machine know which strand that is forward/reverse?
8 weeks ago by scchess ▴ 640
8
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7
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14k
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6 follow
DESeq2 - "all gene-wise dispersion estimates are within 2 orders of magnitude"
deseq2 RNA-Seq R
updated 23 months ago by 44k • written 9.3 years ago by ▴ 640
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1
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1.9k
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Comment: C: Filtering large VCFs by allele freqency using bcftools split-vep function
4.0 years ago by scchess ▴ 640
0
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0
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5.1k
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Comment: C: VariantFiltration warning "undefined variable"
4.4 years ago by scchess ▴ 640
0
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0
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297k
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Comment: C: How To Filter Mapped Reads With Samtools
4.5 years ago by scchess ▴ 640
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0
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23k
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Comment: C: single line fasta to mult line fasta
4.7 years ago by scchess ▴ 640
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0
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5.2k
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Comment: C: What's the precise definition for sensitivity and specificity for alignment?
updated 4.8 years ago by 44k • written 8.7 years ago by ▴ 640
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0
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12k
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Answer: A: Cufflinks Segmentation Fault
updated 5.0 years ago by 44k • written 9.4 years ago by ▴ 640
0
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1
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7.6k
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Comment: C: How to calculate overall coverage in de novo metagenomics assembly?
updated 5.0 years ago by 44k • written 9.4 years ago by ▴ 640
0
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1
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7.6k
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Comment: C: How to calculate overall coverage in de novo assembly?
updated 5.0 years ago by 44k • written 9.4 years ago by ▴ 640
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0
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5.2k
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Answer: A: Differential expression without technical replicates
updated 5.0 years ago by 44k • written 9.4 years ago by ▴ 640
0
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1
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14k
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Comment: C: How to map contigs to the reference genome and know the start and end position?
5.5 years ago by scchess ▴ 640
0
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0
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10k
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Comment: C: Producing the Reverse-complement of each sequence in fastq files
5.5 years ago by scchess ▴ 640
3
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3
replies
5.0k
views
How to convert VarScan TAB format to VCF?
genome varscan2
updated 5.7 years ago by ▴ 20 • written 8.5 years ago by ▴ 640
0
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1
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208k
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Comment: C: Correct Way To Parse A Fasta File In Python
5.7 years ago by scchess ▴ 640
0
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1
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11k
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Comment: C: CDS vs cDNA vs transcript for mapping RNA-Seq reads
5.7 years ago by scchess ▴ 640
0
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0
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15k
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Comment: C: Indel Left/Right Alignment
5.8 years ago by scchess ▴ 640
0
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0
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25k
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Comment: C: How to order columns of heatmap as they are in matrix data
5.9 years ago by scchess ▴ 640
0
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0
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11k
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Comment: C: How to get just protein_coding genes using biomart in R
5.9 years ago by scchess ▴ 640
0
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0
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4.9k
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Comment: C: How to separate htseq-count table to coding RNAs and non-coding RNAs
5.9 years ago by scchess ▴ 640
0
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0
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4.9k
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Comment: C: How to separate htseq-count table to coding RNAs and non-coding RNAs
5.9 years ago by scchess ▴ 640
18
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9
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5.1k
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Is Sleuth a good package?
RNA-Seq R kallisto sleuth
6.0 years ago by scchess ▴ 640
0
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0
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35k
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Comment: C: extract only geneID and gene symbol from GTF file
6.0 years ago by scchess ▴ 640
0
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0
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5.5k
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Comment: C: PED file format for use with GATK PhaseByTransmission
6.2 years ago by scchess ▴ 640
0
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0
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3.8k
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Comment: C: gVCF files into Plink!
6.3 years ago by scchess ▴ 640
0
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0
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3.8k
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Comment: C: split fasta of a protein sequence into consecutive n amino acids
6.3 years ago by scchess ▴ 640
0
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0
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8.4k
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Comment: C: Finding Kmers From Fasta File
6.3 years ago by scchess ▴ 640
5
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1
reply
16k
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Answer: A: fasta file to tab delimited file
updated 6.3 years ago by 16k • written 6.3 years ago by ▴ 640
0
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2
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16k
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Comment: C: fasta file to tab delimited file
6.3 years ago by scchess ▴ 640
0
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1
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16k
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Comment: C: fasta file to tab delimited file
6.3 years ago by scchess ▴ 640
0
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0
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12k
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Comment: C: Annotation for SV and CNV
6.3 years ago by scchess ▴ 640
0
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1
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2.4k
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Comment: C: SOS -- MuTect is picking up obvious germline mutations
6.4 years ago by scchess ▴ 640
0
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0
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8.1k
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Answer: A: Dbsnp In Vcf
6.4 years ago by scchess ▴ 640
0
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0
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8.1k
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Comment: C: Dbsnp In Vcf
6.4 years ago by scchess ▴ 640
0
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0
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8.1k
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Comment: C: Dbsnp In Vcf
6.4 years ago by scchess ▴ 640
0
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0
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5.9k
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Comment: C: Randomly Split A Fastq File
7.1 years ago by scchess ▴ 640
0
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0
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7.3k
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Answer: A: K-mers using JEllyfish
7.3 years ago by scchess ▴ 640
0
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0
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2.0k
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Comment: C: Bug in RUV spike-in normalization?
7.4 years ago by scchess ▴ 640
2
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2
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2.0k
views
Bug in RUV spike-in normalization?
RNA-Seq statistics biostatistics
updated 7.4 years ago by ▴ 270 • written 7.9 years ago by ▴ 640
0
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1
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5.3k
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Comment: C: Individual whole genome sequence data download FASTQ
7.5 years ago by scchess ▴ 640
3
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3
replies
3.8k
views
How to fix my broken GTF file?
gtf
updated 7.5 years ago by 5.0k • written 7.5 years ago by ▴ 640
4
votes
4
replies
2.3k
views
How cuffcompare calculates sensitivity and specificity?
cufflinks statistics
updated 2.4 years ago by 44k • written 9.6 years ago by ▴ 640
5
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2
replies
3.7k
views
How should I choose? Decoy or not?
genome
updated 17 months ago by • 0 • written 7.6 years ago by ▴ 640
1
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0
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13k
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Comment: C: How to count SNPs, InDels
7.6 years ago by scchess ▴ 640
1
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3
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1.4k
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Management software for my samples?
rna-seq sequencing
7.6 years ago by scchess ▴ 640
0
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0
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9.3k
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Comment: C: Automatic IGV snapshot script
7.7 years ago by scchess ▴ 640
13
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3
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7.4k
views
How to sort VCF "chr1, chr2..."
vcf
updated 7.7 years ago by ★ 2.8k • written 7.7 years ago by ▴ 640
0
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0
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7.4k
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Comment: C: How to sort VCF "chr1, chr2..."
7.7 years ago by scchess ▴ 640
0
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0
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7.6k
views
Comment: C: How To Reorder Bam File Contigs For The Gatk Pipeline
7.7 years ago by scchess ▴ 640
4
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1
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6.0k
views
Comment: C: Develop an R package for CRAN vs BioConductor
7.8 years ago by scchess ▴ 640
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