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3
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1
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1.3k
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Answer: Answer: Why do highly expressed genes vary more than lowly expressed genes?
3.3 years ago by Lior Pachter ▴ 720
1
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0
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2.9k
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Comment: Comment: Efficient querying of genomic reference databases with gget
3.4 years ago by Lior Pachter ▴ 720
4
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1
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2.9k
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Comment: Comment: Efficient querying of genomic reference databases with gget
3.4 years ago by Lior Pachter ▴ 720
2
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0
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3.2k
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Comment: Comment: fastq.gz download error
3.4 years ago by Lior Pachter ▴ 720
0
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1
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17k
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Comment: C: How to get read counts on transcript level using featurecounts?
5.7 years ago by Lior Pachter ▴ 720
1
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0
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17k
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Comment: C: How to get read counts on transcript level using featurecounts?
5.7 years ago by Lior Pachter ▴ 720
1
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0
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17k
views
Comment: C: How to get read counts on transcript level using featurecounts?
5.7 years ago by Lior Pachter ▴ 720
0
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1
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17k
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Comment: C: How to get read counts on transcript level using featurecounts?
5.7 years ago by Lior Pachter ▴ 720
1
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0
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2.1k
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Comment: C: Kallisto in snakePipes instead of salmon
updated 5.7 years ago by 45k • written 5.7 years ago by ▴ 720
1
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0
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3.9k
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Comment: C: Cellranger data to Monocle Pseudotime
5.8 years ago by Lior Pachter ▴ 720
1
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1
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2.5k
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Comment: C: Should I merge the Paired-end RNA-seq reads for BLAT for intron identification
5.8 years ago by Lior Pachter ▴ 720
14
votes
1
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41k
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Answer: C: Transcript to gene level count for DEseq(2) use- Salmon/Sailfish/Kallisto etc.
updated 6.0 years ago by 45k • written 10.2 years ago by ▴ 720
3
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0
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4.4k
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Answer: A: differential expression at transcript level with paired samples
updated 6.0 years ago by 45k • written 10.2 years ago by ▴ 720
2
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0
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6.8k
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Comment: C: RNA velocity on 5' 10x data?
6.0 years ago by Lior Pachter ▴ 720
2
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1
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1.2k
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Answer: A: RNA-Seq quantification of a heterozygous individual with a short deletion
6.1 years ago by Lior Pachter ▴ 720
9
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1
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42k
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Answer: A: Could you explain the difference between STAR, KALLISTO, SALMON etc. to experime
6.1 years ago by Lior Pachter ▴ 720
0
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0
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4.7k
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Comment: C: Single-nucleus RNA-seq processing (10x) with Pseudoaligners (Kallisto)
6.2 years ago by Lior Pachter ▴ 720
4
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1
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4.7k
views
Answer: A: Single-nucleus RNA-seq processing (10x) with Pseudoaligners (Kallisto)
updated 6.2 years ago by 45k • written 6.2 years ago by ▴ 720
0
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1
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3.2k
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Comment: C: How to append R1(Barcode+UMI) to header of R2(Read data)
6.2 years ago by Lior Pachter ▴ 720
6
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0
replies
10k
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Answer: A: about the use of CellRanger aggr
6.3 years ago by Lior Pachter ▴ 720
1
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1
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1.9k
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Comment: C: rnaseqcomp for own data withoutref genes
6.3 years ago by Lior Pachter ▴ 720
0
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0
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12k
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Comment: C: RNA-Seq: Getting Started with Kallisto
6.3 years ago by Lior Pachter ▴ 720
0
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3
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17k
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Answer: A: Build a Kallisto transcriptome index
6.3 years ago by Lior Pachter ▴ 720
0
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0
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2.3k
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Comment: C: Will Kallisto or Salmon perform streaming alignment from the Sequence Read Archi
6.3 years ago by Lior Pachter ▴ 720
2
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1
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12k
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Answer: A: RNA-Seq: Getting Started with Kallisto
6.3 years ago by Lior Pachter ▴ 720
3
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1
reply
5.8k
views
Comment: C: Which bias flags to run with Salmon before DESeq2 analysis?
updated 6.4 years ago by 45k • written 6.4 years ago by ▴ 720
2
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0
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4.6k
views
Answer: A: Dealing with 1000's of demultiplexed fastq files
6.4 years ago by Lior Pachter ▴ 720
1
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0
replies
6.6k
views
Answer: A: UMI Tools Dedup
6.4 years ago by Lior Pachter ▴ 720
0
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0
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13k
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Answer: A: Hardware requirement for RNA-seq
6.6 years ago by Lior Pachter ▴ 720
0
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1
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2.3k
views
Comment: C: Will Kallisto or Salmon perform streaming alignment from the Sequence Read Archi
7.2 years ago by Lior Pachter ▴ 720
1
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1
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24k
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Comment: C: RNA-Seq analysis using STAR and Salmon
8.1 years ago by Lior Pachter ▴ 720
1
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2
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4.6k
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Comment: C: Can anyone suggest a RShiny app for displaying RNA-seq results online
9.3 years ago by Lior Pachter ▴ 720
0
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0
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4.0k
views
Comment: C: Estimating RPKM or TPM in RNA-Seq data
9.6 years ago by Lior Pachter ▴ 720
0
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1
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6.2k
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Comment: C: RNA-Seq for DE analysis
9.6 years ago by Lior Pachter ▴ 720
2
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1
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6.2k
views
Comment: C: RNA-Seq for DE analysis
9.6 years ago by Lior Pachter ▴ 720
0
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0
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4.3k
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Comment: C: RNA-seq mapper that allows variability and handles multi-mapping?
9.6 years ago by Lior Pachter ▴ 720
0
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0
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23k
views
Comment: C: Current state-of-the-art for RNA-Seq gene / transcript expression quantification
9.6 years ago by Lior Pachter ▴ 720
0
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0
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13k
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Comment: C: Kallisto New RNA-seq quantification method discussion
9.6 years ago by Lior Pachter ▴ 720
1
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0
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13k
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Comment: C: Kallisto New RNA-seq quantification method discussion
9.6 years ago by Lior Pachter ▴ 720
0
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0
replies
13k
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Comment: C: Kallisto New RNA-seq quantification method discussion
9.6 years ago by Lior Pachter ▴ 720
0
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0
replies
13k
views
Comment: C: Kallisto New RNA-seq quantification method discussion
9.6 years ago by Lior Pachter ▴ 720
1
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0
replies
3.8k
views
Answer: A: Assembly of transcripts of specific genes from the RNA-seq data
10.1 years ago by Lior Pachter ▴ 720
1
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0
replies
11k
views
Comment: Comment: Can Kallisto be followed by DESeq, EdgeR or Cuffdiff?
updated 3.1 years ago by 45k • written 10.2 years ago by ▴ 720
1
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1
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3.6k
views
Answer: A: Differential expression in edgeR with cuffdiff count output
10.2 years ago by Lior Pachter ▴ 720
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