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0
votes
2
replies
2.6k
views
Trimmomatic: Missing sequence line from record
RNA-Seq
updated 2.8 years ago by 154k • written 8.1 years ago by ▴ 90
2
votes
3
replies
1.2k
views
Are there risks to use a GRCh38 gtf and a hg19 fa in alignment?
RNASeq
updated 4.2 years ago by 15k • written 4.2 years ago by ▴ 90
0
votes
6
replies
3.4k
views
Contrast matrix for paired samples in limma
R limma
updated 5.0 years ago by ▴ 10 • written 9.6 years ago by ▴ 90
7
votes
6
replies
30k
views
Calculate the fold change between two groups
RNA-Seq
updated 5.1 years ago by ▴ 10 • written 9.1 years ago by ▴ 90
4
votes
7
replies
1.3k
views
Strandedness of whole genome sequences?
next-gen
updated 5.2 years ago by 20 • written 5.3 years ago by ▴ 90
1
vote
1
reply
777
views
Is it possible to pipelined two picard tools into one input?
next-gen
updated 5.3 years ago by 166k • written 5.3 years ago by ▴ 90
2
votes
8
replies
5.4k
views
STAR outputs empty alignment
alignment sequence
updated 5.3 years ago by ▴ 50 • written 9.3 years ago by ▴ 90
0
votes
1
reply
1.3k
views
Comment: C: Strandedness of whole genome sequences?
5.3 years ago by ddzhangzz ▴ 90
3
votes
3
replies
1.5k
views
Check the DNA strands source information of paired RNA-Seq fastq data
RNA-Seq
updated 5.5 years ago by 20 • written 8.4 years ago by ▴ 90
6
votes
3
replies
2.7k
views
How to subset fastq data based on leading nt of sequences?
RNA-Seq
updated 6.1 years ago by ★ 3.5k • written 6.1 years ago by ▴ 90
0
votes
1
reply
3.0k
views
Comment: C: Gatk Mutec2 germline resources for mouse
6.5 years ago by ddzhangzz ▴ 90
0
votes
0
replies
1.6k
views
Comment: C: How does gage test the pathway statistics?
6.5 years ago by ddzhangzz ▴ 90
1
vote
2
replies
1.6k
views
How does gage test the pathway statistics?
R bioconductor
updated 6.5 years ago by 12k • written 6.5 years ago by ▴ 90
1
vote
1
reply
2.5k
views
How to safely rename the chromosome names in fasta and gtf
RNA-Seq
6.6 years ago by ddzhangzz ▴ 90
1
vote
1
reply
7.2k
views
How to change SM tag in bam file
next-gen
updated 7.2 years ago by 89k • written 7.2 years ago by ▴ 90
0
votes
1
reply
1.3k
views
Is there a way to retrieve peptide motifs based on MAF/VEP output?
next-gen
updated 7.4 years ago by ★ 5.2k • written 7.4 years ago by ▴ 90
0
votes
0
replies
1.6k
views
Comment: C: how to split a bam file by read prefix
7.6 years ago by ddzhangzz ▴ 90
0
votes
2
replies
1.6k
views
how to split a bam file by read prefix
RNA-Seq
updated 7.6 years ago by 166k • written 7.6 years ago by ▴ 90
0
votes
0
replies
3.9k
views
Comment: C: How has StringTie caculated the transcript coverage?
7.7 years ago by ddzhangzz ▴ 90
3
votes
4
replies
3.9k
views
How has StringTie caculated the transcript coverage?
RNA-Seq
updated 7.7 years ago by ▴ 130 • written 7.8 years ago by ▴ 90
2
votes
4
replies
4.0k
views
How to download NCBI sequences using a list of Refseq IDs?
R
7.9 years ago by ddzhangzz ▴ 90
2
votes
1
reply
1.7k
views
How to screen TCGA population for a specific mutation using a COSMIC ID
next-gen
updated 8.0 years ago by 89k • written 8.0 years ago by ▴ 90
0
votes
2
replies
2.2k
views
Why Trimmoatic assign paired sequences to unpaired after adapter trimming
RNA-Seq
8.0 years ago by ddzhangzz ▴ 90
0
votes
0
replies
2.2k
views
Comment: C: Why Trimmoatic assign paired sequences to unpaired after adapter trimming
8.0 years ago by ddzhangzz ▴ 90
0
votes
3
replies
3.2k
views
From bam files to isoform read counts
RNA-Seq
updated 8.1 years ago by ▴ 320 • written 8.5 years ago by ▴ 90
0
votes
1
reply
2.4k
views
Comment: C: How to subset a UCSC table
8.3 years ago by ddzhangzz ▴ 90
0
votes
0
replies
2.4k
views
Comment: C: How to subset a UCSC table
8.3 years ago by ddzhangzz ▴ 90
2
votes
5
replies
2.4k
views
How to subset a UCSC table
Assembly
8.3 years ago by ddzhangzz ▴ 90
0
votes
1
reply
1.5k
views
Comment: C: Check the DNA strands source information of paired RNA-Seq fastq data
8.4 years ago by ddzhangzz ▴ 90
5
votes
4
replies
1.2k
views
Quick check of the RNASeq length for a bunch of files
RNA-Seq
updated 8.5 years ago by 154k • written 8.5 years ago by ▴ 90
7
votes
4
replies
4.8k
views
Extract mutations for a specific gene from a vcf file
VCF
updated 8.5 years ago by 5.8k • written 8.5 years ago by ▴ 90
0
votes
1
reply
2.6k
views
how to map UCSC isoform id to its isoform symbols?
RNA-Seq
updated 8.5 years ago by 20 • written 9.0 years ago by ▴ 90
0
votes
4
replies
1.8k
views
cutadapt cut the whole sequence from RNASeq fastq file
RNA-Seq
8.6 years ago by ddzhangzz ▴ 90
0
votes
0
replies
1.8k
views
Comment: C: cutadapt cut the whole sequence from RNASeq fastq file
8.6 years ago by ddzhangzz ▴ 90
0
votes
1
reply
1.8k
views
Comment: C: cutadapt cut the whole sequence from RNASeq fastq file
8.6 years ago by ddzhangzz ▴ 90
1
vote
1
reply
4.0k
views
How to link TCGA/GDC HTSeq or FPKM data with clinical data?
RNA-Seq
updated 8.7 years ago by ▴ 130 • written 8.9 years ago by ▴ 90
0
votes
0
replies
2.2k
views
Annotation document for Agilent G4851C (SurePrint G3 Human Gene Expression V3 Microarray Kit )
Microarray
8.7 years ago by ddzhangzz ▴ 90
0
votes
0
replies
2.5k
views
Comment: C: Alternative splicing analysis of targeted RNASeq data
8.7 years ago by ddzhangzz ▴ 90
1
vote
4
replies
2.5k
views
Alternative splicing analysis of targeted RNASeq data
RNA-Seq
updated 8.7 years ago by 7.6k • written 8.7 years ago by ▴ 90
0
votes
1
reply
30k
views
Comment: C: Calculate the fold change between two groups
9.1 years ago by ddzhangzz ▴ 90
0
votes
1
reply
2.6k
views
Comment: C: Should I trim adapter for single-end RNASeq reads?
9.1 years ago by ddzhangzz ▴ 90
4
votes
3
replies
2.6k
views
Should I trim adapter for single-end RNASeq reads?
RNA-Seq
updated 9.1 years ago by 105k • written 9.1 years ago by ▴ 90
0
votes
0
replies
5.4k
views
Comment: C: STAR outputs empty alignment
9.3 years ago by ddzhangzz ▴ 90
4
votes
2
replies
3.0k
views
bowtie2 output only valid alignments
RNA-Seq
9.4 years ago by ddzhangzz ▴ 90
0
votes
0
replies
3.3k
views
Comment: C: How to divide the reference sequence into batches or chunks
9.5 years ago by ddzhangzz ▴ 90
0
votes
1
reply
3.3k
views
Comment: C: How to divide the reference sequence into batches or chunks
9.5 years ago by ddzhangzz ▴ 90
2
votes
7
replies
3.3k
views
How to divide the reference sequence into batches or chunks
RNA-Seq
9.5 years ago by ddzhangzz ▴ 90
5
votes
4
replies
5.2k
views
Align RNASeq reads to combined genomes
RNA-Seq
9.5 years ago by ddzhangzz ▴ 90
2
votes
0
replies
5.2k
views
Answer: A: Align RNASeq reads to combined genomes
9.5 years ago by ddzhangzz ▴ 90
0
votes
0
replies
5.2k
views
Comment: C: Align RNASeq reads to combined genomes
9.5 years ago by ddzhangzz ▴ 90
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