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Comment: Comment: Extracting nucleotide gene sequence as a single fasta from whole genome data wit
10 months ago by Pei ▴ 240
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2.1k
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Answer: Answer: Extracting nucleotide gene sequence as a single fasta from whole genome data wit
10 months ago by Pei ▴ 240
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0
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1.5k
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Tutorial: Fix the "incompatible matrix dimensions" issue in running harmony
Harmony RNA-seq single-cell
updated 10 months ago by 45k • written 10 months ago by ▴ 240
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0
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2.3k
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Comment: Comment: Differential expressed genes - much more DE genes for one factor in the additive
14 months ago by Pei ▴ 240
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7
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2.3k
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Differential expressed genes - much more DE genes for one factor in the additive model than the interaction model . What may be the reason?
DESeq2
14 months ago by Pei ▴ 240
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0
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2.3k
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Comment: Comment: Differential expressed genes - much more DE genes for one factor in the additive
14 months ago by Pei ▴ 240
0
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0
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2.3k
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Comment: Comment: Differential expressed genes - much more DE genes for one factor in the additive
14 months ago by Pei ▴ 240
4
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4
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1.4k
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No mouseOver effect in my track hub on UCSC genome browser
UCSC-genome-browser
updated 14 months ago by 45k • written 15 months ago by ▴ 240
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1.4k
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Answer: Answer: No mouseOver effect in my track hub on UCSC genome browser
14 months ago by Pei ▴ 240
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1
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1.4k
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Comment: Comment: No mouseOver effect in my track hub on UCSC genome browser
14 months ago by Pei ▴ 240
2
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1
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1.4k
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Answer: Answer: No mouseOver effect in my track hub on UCSC genome browser
updated 14 months ago by 154k • written 14 months ago by ▴ 240
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1
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843
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bamCoverage - how BPM normalization was done?
bamcoverage chip-seq deeptools
15 months ago by Pei ▴ 240
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0
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843
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Answer: Answer: bamCoverage - how BPM normalization was done?
15 months ago by Pei ▴ 240
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1
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1.2k
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Comment: Comment: Any recommended way to share ChIP track to collaborator through UCSC browser wit
15 months ago by Pei ▴ 240
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1
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1.2k
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Comment: Comment: Any recommended way to share ChIP track to collaborator through UCSC browser wit
15 months ago by Pei ▴ 240
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5
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1.2k
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Any recommended way to share ChIP track to collaborator through UCSC browser without using local FTP?
ChIP-Seq UCSC-genome-browser
15 months ago by Pei ▴ 240
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0
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967
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Comment: Comment: Any recommended way to view scRNAseq results in an interactive format?
16 months ago by Pei ▴ 240
4
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3
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967
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Any recommended way to view scRNAseq results in an interactive format?
RNA-seq single-cell
16 months ago by Pei ▴ 240
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0
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712
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MACS2 parameters slocal and llocal - how are they related to open chromatin?
MACS2 ChIP-Seq
2.3 years ago by Pei ▴ 240
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0
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3.5k
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Answer: Answer: Differential Gene Expression analysis in Bulk RNA Seq - using Count Matrix as in
2.3 years ago by Pei ▴ 240
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932
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Answer: Answer: Inferring undisclosed 5mer in proprietary SMARTer oligo sequence
2.3 years ago by Pei ▴ 240
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1
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1.4k
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Answer: Answer: Whole transcriptome analysis nominated primarily miRNA-related pathways. Advice?
2.3 years ago by Pei ▴ 240
2
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1
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1.4k
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Answer: Answer: Whole transcriptome analysis nominated primarily miRNA-related pathways. Advice?
2.3 years ago by Pei ▴ 240
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1
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2.7k
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Comment: Comment: search for intron conservancy across species
2.3 years ago by Pei ▴ 240
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1
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2.7k
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Answer: Answer: search for intron conservancy across species
2.3 years ago by Pei ▴ 240
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0
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904
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Annotation of ATAC-seq peak - distal intergenic regions as enhancers
annotation peak ATAC-seq
2.3 years ago by Pei ▴ 240
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0
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1.1k
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Comment: Comment: many more ChIP-seq peaks called in 1 condition than the other
2.3 years ago by Pei ▴ 240
3
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2
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1.1k
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many more ChIP-seq peaks called in 1 condition than the other
MACS2 ChIP-Seq
updated 2.3 years ago by ★ 1.7k • written 2.3 years ago by ▴ 240
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0
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2.4k
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Comment: Comment: Are adapter sequences trimmed from ONLY the 3' ends of reads
3.9 years ago by Pei ▴ 240
4
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3
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2.4k
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Are adapter sequences trimmed from ONLY the 3' ends of reads
RNA-SEQ
3.9 years ago by Pei ▴ 240
1
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3
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3.9k
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file size of pair-end sequencing fastq
RNA-SEQ
4.0 years ago by Pei ▴ 240
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0
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3.9k
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Comment: Comment: file size of pair-end sequencing fastq
4.0 years ago by Pei ▴ 240
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0
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3.9k
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Comment: Comment: file size of pair-end sequencing fastq
4.0 years ago by Pei ▴ 240
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0
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13k
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Comment: Comment: how to determine a fastq is phred+33 or phred+64
4.0 years ago by Pei ▴ 240
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0
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13k
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Comment: Comment: how to determine a fastq is phred+33 or phred+64
4.0 years ago by Pei ▴ 240
3
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4
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13k
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how to determine a fastq is phred+33 or phred+64
RNA-seq phred33 phred64
4.0 years ago by Pei ▴ 240
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0
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1.6k
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STAR genomeSAindexNbases
RNA-seq STAR mapping
4.0 years ago by Pei ▴ 240
0
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0
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4.2k
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Answer: A: Mapping left_kept_reads.m2g_um to genome FAILED running Tophat2/Bowtie2
updated 5.9 years ago by 45k • written 9.8 years ago by ▴ 240
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1
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5.4k
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Comment: C: Should I filter my reads before running bedtools multicov ?
updated 6.0 years ago by 45k • written 10.0 years ago by ▴ 240
5
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7
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5.4k
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Should I filter my reads before running bedtools multicov ?
RNA-Seq
updated 3.2 years ago by 45k • written 10.0 years ago by ▴ 240
4
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3
replies
3.4k
views
how to improve multiple sequence alignment by removing outlier sequence ?
alignment
updated 6.5 years ago by 20 • written 9.3 years ago by ▴ 240
1
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3
replies
1.7k
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What tool can be used to predct regulatory element within an input sequence ?
sequence
updated 6.7 years ago by ▴ 370 • written 6.7 years ago by ▴ 240
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0
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1.7k
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Comment: C: What tool can be used to predct regulatory element within an input sequence ?
6.7 years ago by Pei ▴ 240
5
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2
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7.7k
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tophat, the parameter "Expected inner distance between mate pairs"?
tophat
updated 3.6 years ago by 45k • written 10.8 years ago by ▴ 240
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1
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2.2k
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Comment: C: tophat: the Searching for junctions via segment mapping was skipped.
9.3 years ago by Pei ▴ 240
0
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2
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2.2k
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Comment: A: tophat: the Searching for junctions via segment mapping was skipped.
updated 9.3 years ago by 154k • written 9.3 years ago by ▴ 240
0
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6
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2.2k
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tophat: the Searching for junctions via segment mapping was skipped.
rna-seq
9.3 years ago by Pei ▴ 240
1
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2
replies
3.6k
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CLIP-seq data process, start from sra file
CLIP
updated 3.7 years ago by 45k • written 10.9 years ago by ▴ 240
1
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1
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2.7k
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align RNA-seq reads to annotated CDS
RNA-Seq
9.5 years ago by Pei ▴ 240
0
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1
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2.6k
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Comment: C: a protein failed to be aligned to genome by tblastn
9.5 years ago by Pei ▴ 240
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