escpod inspect¶

Inspect POD5 file metadata and contents.

escpod inspect

Usage¶

escpod inspect <SUBCOMMAND> <INPUT>

Subcommands¶

Subcommand	Description
`summary`	Show file summary statistics
`reads`	List all read IDs
`read`	Show details for a specific read

escpod inspect summary¶

Display summary information about a POD5 file.

Usage¶

escpod inspect summary <INPUT>

Example¶

escpod inspect summary experiment.pod5

Output:

File: experiment.pod5
Size: 1.2 GB
Reads: 10,543
Batches: 11
Run info entries: 1

Run: abc123-def456
  Flow cell: FAK12345
  Protocol: sequencing_MIN106_DNA
  Sample rate: 4000 Hz
  Started: 2024-01-15 10:30:00

escpod inspect reads¶

List all read IDs in the file.

Usage¶

escpod inspect reads <INPUT>

Example¶

escpod inspect reads experiment.pod5

Output:

a1b2c3d4-e5f6-7890-abcd-ef1234567890
b2c3d4e5-f6a7-8901-bcde-f12345678901
c3d4e5f6-a7b8-9012-cdef-123456789012
...

This is useful for creating filter lists:

escpod inspect reads experiment.pod5 > all_reads.txt

escpod inspect read¶

Show detailed information about a specific read.

Usage¶

escpod inspect read <INPUT> <READ_ID>

Arguments¶

Argument	Description
`<INPUT>`	Path to the POD5 file
`<READ_ID>`	UUID of the read to inspect

Example¶

escpod inspect read experiment.pod5 a1b2c3d4-e5f6-7890-abcd-ef1234567890

Output:

Read: a1b2c3d4-e5f6-7890-abcd-ef1234567890
  Channel: 1
  Well: 1
  Read number: 42
  Start sample: 1234567
  Num samples: 50000
  Median before: 210.5 pA
  End reason: signal_positive
  Calibration:
    Offset: -240.5
    Scale: 0.145
  Run info: abc123-def456