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0
votes
2
replies
2.2k
views
Trimmomatic: Missing sequence line from record
RNA-Seq
updated 16 months ago by 141k • written 6.7 years ago by ▴ 90
2
votes
3
replies
785
views
Are there risks to use a GRCh38 gtf and a hg19 fa in alignment?
RNASeq
updated 2.8 years ago by 14k • written 2.8 years ago by ▴ 90
0
votes
6
replies
3.0k
views
Contrast matrix for paired samples in limma
R limma
updated 3.6 years ago by ▴ 10 • written 8.1 years ago by ▴ 90
7
votes
6
replies
27k
views
Calculate the fold change between two groups
RNA-Seq
updated 3.7 years ago by ▴ 10 • written 7.7 years ago by ▴ 90
4
votes
7
replies
869
views
Strandedness of whole genome sequences?
next-gen
updated 3.7 years ago by 20 • written 3.9 years ago by ▴ 90
1
vote
1
reply
537
views
Is it possible to pipelined two picard tools into one input?
next-gen
updated 3.8 years ago by 161k • written 3.8 years ago by ▴ 90
2
votes
8
replies
4.6k
views
STAR outputs empty alignment
alignment sequence
updated 3.9 years ago by ▴ 50 • written 7.9 years ago by ▴ 90
0
votes
1
reply
869
views
Comment: C: Strandedness of whole genome sequences?
3.9 years ago by ddzhangzz ▴ 90
3
votes
3
replies
1.1k
views
Check the DNA strands source information of paired RNA-Seq fastq data
RNA-Seq
updated 4.1 years ago by 20 • written 6.9 years ago by ▴ 90
6
votes
3
replies
1.9k
views
How to subset fastq data based on leading nt of sequences?
RNA-Seq
updated 4.7 years ago by ★ 3.5k • written 4.7 years ago by ▴ 90
0
votes
1
reply
2.3k
views
Comment: C: Gatk Mutec2 germline resources for mouse
5.0 years ago by ddzhangzz ▴ 90
0
votes
0
replies
1.3k
views
Comment: C: How does gage test the pathway statistics?
5.1 years ago by ddzhangzz ▴ 90
1
vote
2
replies
1.3k
views
How does gage test the pathway statistics?
R bioconductor
updated 5.1 years ago by 11k • written 5.1 years ago by ▴ 90
1
vote
1
reply
2.2k
views
How to safely rename the chromosome names in fasta and gtf
RNA-Seq
5.2 years ago by ddzhangzz ▴ 90
1
vote
1
reply
6.1k
views
How to change SM tag in bam file
next-gen
updated 5.8 years ago by 82k • written 5.8 years ago by ▴ 90
0
votes
1
reply
1.1k
views
Is there a way to retrieve peptide motifs based on MAF/VEP output?
next-gen
updated 5.9 years ago by ★ 5.2k • written 5.9 years ago by ▴ 90
0
votes
0
replies
1.3k
views
Comment: C: how to split a bam file by read prefix
6.1 years ago by ddzhangzz ▴ 90
0
votes
2
replies
1.3k
views
how to split a bam file by read prefix
RNA-Seq
updated 6.1 years ago by 161k • written 6.1 years ago by ▴ 90
0
votes
0
replies
3.2k
views
Comment: C: How has StringTie caculated the transcript coverage?
6.2 years ago by ddzhangzz ▴ 90
3
votes
4
replies
3.2k
views
How has StringTie caculated the transcript coverage?
RNA-Seq
updated 6.2 years ago by ▴ 130 • written 6.3 years ago by ▴ 90
2
votes
4
replies
3.5k
views
How to download NCBI sequences using a list of Refseq IDs?
R
6.5 years ago by ddzhangzz ▴ 90
2
votes
1
reply
1.5k
views
How to screen TCGA population for a specific mutation using a COSMIC ID
next-gen
updated 6.5 years ago by 87k • written 6.5 years ago by ▴ 90
0
votes
2
replies
1.8k
views
Why Trimmoatic assign paired sequences to unpaired after adapter trimming
RNA-Seq
6.5 years ago by ddzhangzz ▴ 90
0
votes
0
replies
1.8k
views
Comment: C: Why Trimmoatic assign paired sequences to unpaired after adapter trimming
6.5 years ago by ddzhangzz ▴ 90
0
votes
3
replies
2.6k
views
From bam files to isoform read counts
RNA-Seq
updated 6.7 years ago by ▴ 320 • written 7.1 years ago by ▴ 90
0
votes
1
reply
1.8k
views
Comment: C: How to subset a UCSC table
6.9 years ago by ddzhangzz ▴ 90
0
votes
0
replies
1.8k
views
Comment: C: How to subset a UCSC table
6.9 years ago by ddzhangzz ▴ 90
2
votes
5
replies
1.8k
views
How to subset a UCSC table
Assembly
6.9 years ago by ddzhangzz ▴ 90
0
votes
1
reply
1.1k
views
Comment: C: Check the DNA strands source information of paired RNA-Seq fastq data
6.9 years ago by ddzhangzz ▴ 90
5
votes
4
replies
903
views
Quick check of the RNASeq length for a bunch of files
RNA-Seq
updated 7.0 years ago by 141k • written 7.0 years ago by ▴ 90
7
votes
4
replies
4.3k
views
Extract mutations for a specific gene from a vcf file
VCF
updated 7.1 years ago by 5.7k • written 7.1 years ago by ▴ 90
0
votes
1
reply
2.3k
views
how to map UCSC isoform id to its isoform symbols?
RNA-Seq
updated 7.1 years ago by 20 • written 7.6 years ago by ▴ 90
0
votes
4
replies
1.3k
views
cutadapt cut the whole sequence from RNASeq fastq file
RNA-Seq
7.2 years ago by ddzhangzz ▴ 90
0
votes
0
replies
1.3k
views
Comment: C: cutadapt cut the whole sequence from RNASeq fastq file
7.2 years ago by ddzhangzz ▴ 90
0
votes
1
reply
1.3k
views
Comment: C: cutadapt cut the whole sequence from RNASeq fastq file
7.2 years ago by ddzhangzz ▴ 90
1
vote
1
reply
3.6k
views
How to link TCGA/GDC HTSeq or FPKM data with clinical data?
RNA-Seq
updated 7.2 years ago by ▴ 120 • written 7.4 years ago by ▴ 90
0
votes
0
replies
1.9k
views
Annotation document for Agilent G4851C (SurePrint G3 Human Gene Expression V3 Microarray Kit )
Microarray
7.2 years ago by ddzhangzz ▴ 90
0
votes
0
replies
2.1k
views
Comment: C: Alternative splicing analysis of targeted RNASeq data
7.2 years ago by ddzhangzz ▴ 90
1
vote
4
replies
2.1k
views
Alternative splicing analysis of targeted RNASeq data
RNA-Seq
updated 7.2 years ago by 7.5k • written 7.2 years ago by ▴ 90
0
votes
1
reply
27k
views
Comment: C: Calculate the fold change between two groups
7.7 years ago by ddzhangzz ▴ 90
0
votes
1
reply
2.2k
views
Comment: C: Should I trim adapter for single-end RNASeq reads?
7.7 years ago by ddzhangzz ▴ 90
4
votes
3
replies
2.2k
views
Should I trim adapter for single-end RNASeq reads?
RNA-Seq
updated 7.7 years ago by 104k • written 7.7 years ago by ▴ 90
0
votes
0
replies
4.6k
views
Comment: C: STAR outputs empty alignment
7.9 years ago by ddzhangzz ▴ 90
4
votes
2
replies
2.6k
views
bowtie2 output only valid alignments
RNA-Seq
8.0 years ago by ddzhangzz ▴ 90
0
votes
0
replies
2.6k
views
Comment: C: How to divide the reference sequence into batches or chunks
8.0 years ago by ddzhangzz ▴ 90
0
votes
1
reply
2.6k
views
Comment: C: How to divide the reference sequence into batches or chunks
8.0 years ago by ddzhangzz ▴ 90
2
votes
7
replies
2.6k
views
How to divide the reference sequence into batches or chunks
RNA-Seq
8.0 years ago by ddzhangzz ▴ 90
5
votes
4
replies
4.3k
views
Align RNASeq reads to combined genomes
RNA-Seq
8.0 years ago by ddzhangzz ▴ 90
2
votes
0
replies
4.3k
views
Answer: A: Align RNASeq reads to combined genomes
8.0 years ago by ddzhangzz ▴ 90
0
votes
0
replies
4.3k
views
Comment: C: Align RNASeq reads to combined genomes
8.0 years ago by ddzhangzz ▴ 90
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