Update README.md

README.md

@@ -1,62 +1,110 @@
----
-license: cc-by-nc-4.0
-configs:
-- config_name: default
-  data_files:
-  - split: train
-    path: data/train-*
-dataset_info:
-  features:
-  - name: sequence_id
-    dtype: int64
-  - name: cluster_id
-    dtype: int64
-  - name: rep_id
-    dtype: int64
-  - name: redundancy
-    dtype: string
-  - name: is_ambiguous
-    dtype: string
-  - name: is_skani_viral
-    dtype: string
-  - name: is_rs10
-    dtype: string
-  - name: is_checkv
-    dtype: bool
-  - name: fraction
-    dtype: string
-  - name: biome
-    dtype: string
-  - name: y
-    dtype: int64
-  - name: label
-    dtype: string
-  - name: sample_id
-    dtype: string
-  - name: fasta_id
-    dtype: string
-  - name: orientation
-    dtype: string
-  - name: pair_id
-    dtype: string
-  - name: Project ID
-    dtype: string
-  - name: SRA/ERR Run
-    dtype: string
-  - name: length_category
-    dtype: string
-  - name: length_category_encoded
-    dtype: int64
-  - name: Benchmark_exclusion
-    dtype: int64
-  - name: seq_len
-    dtype: int64
-  - name: sequence
-    dtype: string
-  splits:
-  - name: train
-    num_bytes: 4243077700
-    num_examples: 1041053
-  download_size: 1888413845
-  dataset_size: 4243077700
----
+---
+license: cc-by-nc-4.0
+configs:
+- config_name: default
+  data_files:
+  - split: train
+    path: data/train-*
+dataset_info:
+  features:
+  - name: sequence_id
+    dtype: int64
+  - name: cluster_id
+    dtype: int64
+  - name: rep_id
+    dtype: int64
+  - name: redundancy
+    dtype: string
+  - name: is_ambiguous
+    dtype: string
+  - name: is_skani_viral
+    dtype: string
+  - name: is_rs10
+    dtype: string
+  - name: is_checkv
+    dtype: bool
+  - name: fraction
+    dtype: string
+  - name: biome
+    dtype: string
+  - name: y
+    dtype: int64
+  - name: label
+    dtype: string
+  - name: sample_id
+    dtype: string
+  - name: fasta_id
+    dtype: string
+  - name: orientation
+    dtype: string
+  - name: pair_id
+    dtype: string
+  - name: Project ID
+    dtype: string
+  - name: SRA/ERR Run
+    dtype: string
+  - name: length_category
+    dtype: string
+  - name: length_category_encoded
+    dtype: int64
+  - name: Benchmark_exclusion
+    dtype: int64
+  - name: seq_len
+    dtype: int64
+  - name: sequence
+    dtype: string
+  splits:
+  - name: train
+    num_bytes: 4243077700
+    num_examples: 1041053
+  download_size: 1888413845
+  dataset_size: 4243077700
+---
+
+# biom
+
+## Overview
+
+This dataset contains long DNA contig sequences derived from metagenomic samples, together with extensive metadata and classification labels.
+
+## Configs and splits
+
+- Config: default
+- Split: train
+
+
+## Column descriptions
+
+| Column | Type | Description | Observed values / notes |
+|-------|------|-------------|-------------------------|
+| sequence_id | int64 | Unique integer identifier for each sequence record. | Sequential integers |
+| cluster_id | int64 | Identifier of a redundancy cluster grouping highly similar sequences. | Integer cluster IDs |
+| rep_id | int64 | Identifier of the representative sequence within a cluster. | Matches representative entries |
+| redundancy | string | Redundancy status of the sequence relative to clustering. | cluster_representative |
+| is_ambiguous | string | Indicates whether the sequence contains ambiguous bases or failed ambiguity checks. | ambiguous, not_ambiguous |
+| is_skani_viral | string | Result of a viral similarity check (e.g. ANI/skani-based). | similar2v, not_similar2v |
+| is_rs10 | string | Dataset-specific categorical flag. | not_rs10 |
+| is_checkv | bool | Boolean flag related to CheckV processing or filtering. | false |
+| fraction | string | High-level category of sequence origin. | microbial |
+| biome | string | Environmental biome associated with the sample. | tomato soil |
+| y | int64 | Numeric class label used for supervised learning. | 0 |
+| label | string | Human-readable class label corresponding to y. | non_phage |
+| sample_id | string | Sample or run identifier, typically an SRA-style accession. | e.g. SRR8487012 |
+| fasta_id | string | Identifier from the source FASTA or assembly, often encoding node, length, and coverage. | SRR…_NODE_* |
+| orientation | string | Orientation of the sequence in the original assembly. | forward |
+| pair_id | string | Dataset-specific grouping identifier. | R7 |
+| Project ID | string | BioProject accession associated with the sample. | PRJNA646779 |
+| SRA/ERR Run | string | SRA or ENA run accession. | SRR8487012 |
+| length_category | string | Length bin derived from sequence length. | 10k - 50k |
+| length_category_encoded | int64 | Integer encoding of length_category. | 4 |
+| Benchmark_exclusion | int64 | Flag indicating whether the record should be excluded from benchmarking. | 0 or 1 |
+| seq_len | int64 | Length of the DNA sequence in base pairs. | ~29k–47k in samples |
+| sequence | string | DNA sequence consisting of A, C, G, and T characters. Length matches seq_len. | Long nucleotide strings |
+
+## Labels
+
+The dataset includes both numeric and string labels:
+
+- y = 0 corresponds to label = non_phage
+
+Additional label values may exist outside the sampled records.