PROseq_bt2-k100_kmerFilt Track Settings
 
CHM13 PROseq Bowtie2 k100 mapped (chm13v1.1) and unique genome-wide kmer filtering Stranded and notStranded   (All Transcription tracks)

Display mode:       Reset to defaults

Type of graph:
Track height: pixels (range: 11 to 128)
Data view scaling: Always include zero: 
Vertical viewing range: min:  max:   (range: 0 to 127)
Transform function:Transform data points by: 
Windowing function: Smoothing window:  pixels
Negate values:
Draw y indicator lines:at y = 0.0:    at y =
Graph configuration help
All subtracks:
List subtracks: only selected/visible    all    ()  
dense
 Configure 		 PROseq-A bt2-k100  PROseq-A bt2 51mer filtering   Schema 
dense
 Configure 		 PROseq-A bt2-k100  PROseq-A bt2 21mer filtering   Schema 
dense
 Configure 		 PROseq-A bt2-k100  PROseq-A bt2 k100 no kmer filtering   Schema 
dense
 Configure 		 PROseq-A bt2-k100 NEG  PROseq-A bt2 51mer filtering NEG   Schema 
dense
 Configure 		 PROseq-A bt2-k100 NEG  PROseq-A bt2 21mer filtering NEG   Schema 
dense
 Configure 		 PROseq-A bt2-k100 NEG  PROseq-A bt2 k100 no kmer filtering NEG   Schema 
dense
 Configure 		 PROseq-A bt2-k100 POS  PROseq-A bt2 51mer filtering POS   Schema 
dense
 Configure 		 PROseq-A bt2-k100 POS  PROseq-A bt2 21mer filtering POS   Schema 
dense
 Configure 		 PROseq-A bt2-k100 POS  PROseq-A bt2 k100 no kmer filtering POS   Schema 
dense
 Configure 		 PROseq-B bt2-k100  PROseq-B bt2 51mer filtering   Schema 
dense
 Configure 		 PROseq-B bt2-k100  PROseq-B bt2 21mer filtering   Schema 
dense
 Configure 		 PROseq-B bt2-k100  PROseq-B bt2 k100 no kmer filtering   Schema 
dense
 Configure 		 PROseq-B bt2-k100 NEG  PROseq-B bt2 51mer filtering NEG   Schema 
dense
 Configure 		 PROseq-B bt2-k100 NEG  PROseq-B bt2 21mer filtering NEG   Schema 
dense
 Configure 		 PROseq-B bt2-k100 NEG  PROseq-B bt2 k100 no kmer filtering NEG   Schema 
dense
 Configure 		 PROseq-B bt2-k100 POS  PROseq-B bt2 51mer filtering POS   Schema 
dense
 Configure 		 PROseq-B bt2-k100 POS  PROseq-B bt2 21mer filtering POS   Schema 
dense
 Configure 		 PROseq-B bt2-k100 POS  PROseq-B bt2 k100 no kmer filtering POS   Schema 
    

Description

CHM13 PRO-seq Bowtie2 (-k 100) alignments to CHM13v1.1 and Meryl unique k-mer filtering (stranded & not stranded)

Methods

The PRO-seq experiment was done on CHM13 cells and sequenced for 75bp single-ended reads.

Reads were adapter trimmed, quality filtered and D. melanogaster spike-ins were removed.

Reads were mapped with Bowtie2 -k 100 and then filtered through unique genome-wide 21 or 51mers

Display Conventions and Configuration

Data access

Release history

  1. CHM13v1.1 assembly (04.27.21)

Contacts

Credits

Savannah Hoyt (PROseq library prep & sequencing; all mapping & filtering)

Rachel O'Neill

Arang Rhie (Meryl software for generation of unique kmers)