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50
votes
13
replies
65k
views
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Calculating TPM from featureCounts output
RNA-Seq
updated 18 months ago by ▴ 160 • written 9.3 years ago by ▴ 510
0
votes
0
replies
6.1k
views
Comment: Comment: Error about rsem-prepare-reference
updated 5.3 years ago by 45k • written 9.3 years ago by ▴ 510
1
vote
0
replies
39k
views
Comment: C: Remove mitochondrial reads from BAM files
updated 5.3 years ago by 45k • written 9.3 years ago by ▴ 510
0
votes
1
reply
39k
views
Comment: C: Remove mitochondrial reads from BAM files
updated 5.3 years ago by 45k • written 9.3 years ago by ▴ 510
0
votes
1
reply
39k
views
Comment: C: Remove mitochondrial reads from BAM files
updated 5.3 years ago by 45k • written 9.3 years ago by ▴ 510
0
votes
2
replies
39k
views
Answer: A: Remove mitochondrial reads from BAM files
updated 5.3 years ago by 45k • written 9.3 years ago by ▴ 510
0
votes
1
reply
17k
views
Comment: A: Use samtools index on multiple bam files at the same time from the command line?
updated 5.3 years ago by 45k • written 9.3 years ago by ▴ 510
0
votes
0
replies
3.4k
views
Comment: A: Aligning multiple paired-end samples tophat2 command line
updated 5.4 years ago by 45k • written 9.3 years ago by ▴ 510
0
votes
0
replies
5.0k
views
Answer: A: Generate hg19.fa file from hg19.bt2 index files - bowtie2-inspect???
updated 5.4 years ago by 45k • written 9.4 years ago by ▴ 510
0
votes
0
replies
5.8k
views
Comment: C: Meaning of "#NAME?" columns in MACS2 peak output file
updated 5.4 years ago by 45k • written 9.5 years ago by ▴ 510
0
votes
0
replies
3.6k
views
Comment: C: Quality metrics of ChIP-seq BAM files
updated 5.4 years ago by 45k • written 9.6 years ago by ▴ 510
0
votes
6
replies
4.5k
views
Multiple sequence alignment on multiple very long sequences
alignment sequence
updated 5.5 years ago by 20 • written 8.7 years ago by ▴ 510
2
votes
6
replies
8.4k
views
Stuck creating reference genome with STAR
genome rna-seq
updated 6.5 years ago by ▴ 20 • written 9.3 years ago by ▴ 510
4
votes
5
replies
3.9k
views
Gene enrichment analysis with a simple gene list compared to microarray data
gene genome
updated 3.0 years ago by 45k • written 10.2 years ago by ▴ 510
0
votes
0
replies
2.7k
views
Answer: A: Get a list of human genes that are known to have introns within the 5'UTR
8.3 years ago by nash.claire ▴ 510
9
votes
7
replies
2.7k
views
Get a list of human genes that are known to have introns within the 5'UTR
genome gene sequence
8.3 years ago by nash.claire ▴ 510
0
votes
0
replies
2.7k
views
Comment: C: Get a list of human genes that are known to have introns within the 5'UTR
8.3 years ago by nash.claire ▴ 510
0
votes
0
replies
2.7k
views
Comment: C: Get a list of human genes that are known to have introns within the 5'UTR
8.3 years ago by nash.claire ▴ 510
0
votes
2
replies
2.7k
views
Answer: A: Get a list of human genes that are known to have introns within the 5'UTR
8.3 years ago by nash.claire ▴ 510
7
votes
11
replies
5.6k
views
Clarification of good pipeline for transcriptome assembly of RNA-seq data
rna-seq Assembly sequencing
updated 8.5 years ago by ▴ 160 • written 8.5 years ago by ▴ 510
0
votes
1
reply
3.0k
views
Comment: C: Running EvidentialGene with both genome-guided and de novo assemblies
8.5 years ago by nash.claire ▴ 510
0
votes
3
replies
3.0k
views
Running EvidentialGene with both genome-guided and de novo assemblies
RNA-Seq Assembly
updated 8.5 years ago by ▴ 160 • written 8.5 years ago by ▴ 510
1
vote
0
replies
5.6k
views
Comment: C: Clarification of good pipeline for transcriptome assembly of RNA-seq data
8.5 years ago by nash.claire ▴ 510
1
vote
1
reply
5.6k
views
Comment: C: Clarification of good pipeline for transcriptome assembly of RNA-seq data
8.5 years ago by nash.claire ▴ 510
0
votes
1
reply
5.6k
views
Comment: C: Clarification of good pipeline for transcriptome assembly of RNA-seq data
8.5 years ago by nash.claire ▴ 510
3
votes
3
replies
5.8k
views
Meaning of "#NAME?" columns in MACS2 peak output file
ChIP-Seq
updated 3.5 years ago by 45k • written 9.5 years ago by ▴ 510
2
votes
6
replies
2.1k
views
How to view very short (8bp) sequences in IGB genome browser
igb sequence genome
updated 8.7 years ago by ▴ 110 • written 8.7 years ago by ▴ 510
0
votes
1
reply
2.1k
views
Comment: A: How to view very short (8bp) sequences in IGB genome browser
8.7 years ago by nash.claire ▴ 510
0
votes
1
reply
2.1k
views
Comment: A: How to view very short (8bp) sequences in IGB genome browser
8.7 years ago by nash.claire ▴ 510
0
votes
0
replies
1.5k
views
Comment: A: Using IGB to visualize a gene from multiple species at the same time
8.7 years ago by nash.claire ▴ 510
2
votes
2
replies
1.5k
views
Using IGB to visualize a gene from multiple species at the same time
igb
8.7 years ago by nash.claire ▴ 510
0
votes
0
replies
2.6k
views
Retrieving sequences/locations for conserved elements only from specific region of a gene-UCSC
sequence gene genome
8.7 years ago by nash.claire ▴ 510
0
votes
0
replies
4.5k
views
Answer: A: Multiple sequence alignment on multiple very long sequences
8.7 years ago by nash.claire ▴ 510
2
votes
0
replies
8.6k
views
Answer: A: Comparing numbers of ChIP-seq peaks between different sample types
9.0 years ago by nash.claire ▴ 510
29
votes
5
replies
8.6k
views
Comparing numbers of ChIP-seq peaks between different sample types
ChIP-Seq
9.0 years ago by nash.claire ▴ 510
0
votes
1
reply
2.8k
views
Comment: A: Running Homer programs in the background
9.1 years ago by nash.claire ▴ 510
2
votes
6
replies
2.8k
views
Running Homer programs in the background
ChIP-Seq
9.1 years ago by nash.claire ▴ 510
5
votes
6
replies
3.3k
views
Whole genome pie chart
genome sequence
9.1 years ago by nash.claire ▴ 510
0
votes
0
replies
3.3k
views
Answer: A: Whole genome pie chart
9.1 years ago by nash.claire ▴ 510
0
votes
1
reply
2.7k
views
Comment: C: Help with IGB rn6 genome build
9.2 years ago by nash.claire ▴ 510
0
votes
1
reply
2.7k
views
Comment: C: Help with IGB rn6 genome build
9.2 years ago by nash.claire ▴ 510
0
votes
1
reply
2.7k
views
Answer: Answer: Help with IGB rn6 genome build
updated 3.0 years ago by 45k • written 9.2 years ago by ▴ 510
0
votes
7
replies
2.7k
views
Help with IGB rn6 genome build
genome
updated 3.0 years ago by 45k • written 9.2 years ago by ▴ 510
8
votes
1
reply
14k
views
samtools view - F 4 removes sam header and truncates file??
rna-seq alignment
updated 2.7 years ago by 45k • written 9.2 years ago by ▴ 510
3
votes
2
replies
2.3k
views
Annotating genes with a function
RNA-Seq ChIP-Seq
updated 2.7 years ago by 45k • written 9.2 years ago by ▴ 510
0
votes
0
replies
2.3k
views
Comment: A: Annotating genes with a function
9.2 years ago by nash.claire ▴ 510
0
votes
0
replies
8.4k
views
Comment: A: Stuck creating reference genome with STAR
9.3 years ago by nash.claire ▴ 510
0
votes
0
replies
2.9k
views
Is it possible to integrate RNA-seq data with ChIP-seq data if don't have "differential expression" of RNA-seq data??
RNA-Seq ChIP-Seq
updated 2.7 years ago by 45k • written 9.3 years ago by ▴ 510
28
votes
8
replies
17k
views
Use samtools index on multiple bam files at the same time from the command line?
RNA-Seq next-gen sequence
updated 7 months ago by 166k • written 9.3 years ago by ▴ 510
0
votes
1
reply
17k
views
Comment: A: Use samtools index on multiple bam files at the same time from the command line?
9.3 years ago by nash.claire ▴ 510
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